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author pcingola
date Fri, 20 Apr 2012 11:22:59 -0400
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1
2 #-------------------------------------------------------------------------------
3 #
4 # SnpEff configuration file
5 #
6 # Pablo Cingolani
7 #-------------------------------------------------------------------------------
8
9 #---
10 # Databases are stored here
11 # E.g.: Information for 'hg19' is stored in data_dir/hg19/
12 #
13 # Note: Since version 2.1 you can use tilde ('~') as first character to refer to your home directory
14 #---
15 data_dir = ~/snpEff/data/
16
17 #---
18 # Database repository: A URL to the server where you can download databases (command: 'snpEff download dbName')
19 #---
20 database_repository = http://downloads.sourceforge.net/project/snpeff/databases
21
22 #-------------------------------------------------------------------------------
23 # Genomes
24 #
25 # One entry per genome version.
26 #
27 # For genome version 'ZZZ' the entries look like
28 # ZZZ.genome : Real name for ZZZ (e.g. 'Human')
29 # ZZZ.reference : [Optional] Comma separated list of URL to site/s where information for building ZZZ database was extracted.
30 # ZZZ.chrName.codonTable : [Optional] Define codon table used for chromosome 'chrName' (Default: 'codon.Standard')
31 #
32 #-------------------------------------------------------------------------------
33
34 # Ailuropoda_melanoleuca
35 ailmel1.61.genome : Ailuropoda_melanoleuca
36
37 # Anopheles_gambiae
38 agam.genome : Anopheles_gambiae
39 agam.reference : http://agambiae.vectorbase.org/GetData/
40
41 agam2.6.genome : Anopheles_gambiae
42 agam2.6.reference : http://agambiae.vectorbase.org/GetData/
43
44 # Arabidopsis lyrata
45 alyrata107.genome : Arabidopsis_lyrata
46 alyrata107.reference : http://www.phytozome.net/search.php?method=Org_Alyrata
47
48 alyrata1.genome : Arabidopsis_lyrata
49 alyrata1.reference : http://genome.jgi-psf.org/Araly1/Araly1.download.ftp.html
50
51 # Apis mellifera
52 amel2.genome : Bee
53 amel2.reference : http://beebase.org
54
55 # Anolis carolinensis genes (AnoCar1.0) (ENSEMBL)
56 anoCar1.0.60.genome : Anolis_carolinensis
57 anoCar2.0.61.genome : Anolis_carolinensis
58
59 # Aquilegia coerulea
60 aquiCoer.genome : Aquilegia_coerulea
61
62 # Arabidopsis Thaliana
63 athaliana130.genome : Arabidopsis_Thaliana
64 athaliana130.reference : http://www.phytozome.net/dataUsagePolicy.php?org=Org_Athaliana
65
66 athalianaTair9.genome : Arabidopsis_Thaliana
67 athalianaTair9.reference : ftp://ftp.arabidopsis.org/home/tair/Genes/TAIR9_genome_release
68
69 athalianaTair10.genome : Arabidopsis_Thaliana
70 athalianaTair10.reference : ftp://ftp.arabidopsis.org/home/tair/Genes/TAIR10_genome_release
71
72 # Bos taurus genes (Btau_4.0) (ENSEMBL)
73 btau4.0.59.genome : Bos_taurus
74 btau4.0.60.genome : Bos_taurus
75 btau4.0.61.genome : Bos_taurus
76
77 # Otolemur garnettii genes (otoGar1) (ENSEMBL)
78 bushBaby1.60.genome : Otolemur_garnettii
79 bushBaby1.61.genome : Otolemur_garnettii
80
81 # Candida_albicans_SC5314
82 cAlbicansv21.genome: Candida_albicans_SC5314
83 cAlbicansv21.reference: http://www.candidagenome.org/download/gff/C_albicans_SC5314/
84
85 # C. Briggsae
86 c_briggsae_WS230.genome : Caenorhabditis_briggsae
87 c_briggsae_WS230.reference : ftp://ftp.wormbase.org/pub/wormbase/releases/WS230/species/c_briggsae/
88
89 # Cryptococcus neoformans
90 c_neoformans.genome: Cryptococcus_neoformans
91 c_neoformans.reference: http://www.broadinstitute.org/annotation/genome/cryptococcus_neoformans/MultiDownloads.html
92
93 # Callithrix jacchus genes (calJac3) (ENSEMBL)
94 calJac3.2.1.60.genome : Callithrix_jacchus
95 calJac3.2.1.61.genome : Callithrix_jacchus
96
97 # Canis familiaris genes (CanFam_2.0) (ENSEMBL)
98 canFam2.59.genome : Canis_familiaris
99 canFam2.60.genome : Canis_familiaris
100 canFam2.61.genome : Canis_familiaris
101
102 # Felis catus genes (CAT) (ENSEMBL)
103 cat1.60.genome : Felis_catus
104 cat1.61.genome : Felis_catus
105
106 # Cavia porcellus genes (cavPor3) (ENSEMBL)
107 cavPor3.60.genome : Cavia_porcellus
108 cavPor3.61.genome : Cavia_porcellus
109
110 # Caenorhabditis elegans genes (WS210) (ENSEMBL)
111 ce.WS201.genome : Caenorhabditis_elegans
112 ce.WS210.60.genome : Caenorhabditis_elegans
113 ce.WS220.61.genome : Caenorhabditis_elegans
114
115 # Pan troglodytes genes (CHIMP2.1) (ENSEMBL)
116 chimp2.1.59.genome : Pan_troglodytes
117 chimp2.1.60.genome : Pan_troglodytes
118 chimp2.1.61.genome : Pan_troglodytes
119
120 # Choloepus hoffmanni genes (choHof1) (ENSEMBL)
121 choHof1.60.genome : Choloepus_hoffmanni
122 choHof1.61.genome : Choloepus_hoffmanni
123
124 # Ciona intestinalis genes (JGI2) (ENSEMBL)
125 cInt2.60.genome : Ciona_intestinalis
126 cInt2.61.genome : Ciona_intestinalis
127
128 # CP000730
129 CP000730.genome : Staphylococcus_aureus
130 CP000730.reference : http://www.ncbi.nlm.nih.gov/nuccore/CP000730.1
131
132 # Capsella_rubella_v1.0 (Toronto University, Grandiflora)
133 crubella.genome : Capsella_rubella_v1.0
134
135 # Ciona savignyi genes (CSAV2.0) (ENSEMBL)
136 cSav2.0.60.genome : Ciona_savignyi
137 cSav2.0.61.genome : Ciona_savignyi
138
139 # Danio rerio genes (Zv9) (ENSEMBL)
140 danRer8.59.genome : Danio_rerio
141 danRer9.60.genome : Danio_rerio
142 danRer9.61.genome : Danio_rerio
143
144 # Dasypus novemcinctus genes (dasNov2) (ENSEMBL)
145 dasNov2.60.genome : Dasypus_novemcinctus
146 dasNov2.61.genome : Dasypus_novemcinctus
147
148 # Dipodomys ordii genes (dipOrd1) (ENSEMBL)
149 dipOrd1.60.genome : Dipodomys_ordii
150 dipOrd1.61.genome : Dipodomys_ordii
151
152 # Drosophila melanogaster (ENSEMBL)
153 dm5.25.59.genome : Drosophila_melanogaster
154 dm5.25.60.genome : Drosophila_melanogaster
155 dm5.25.61.genome : Drosophila_melanogaster
156 dm5.25.63.genome : Drosophila_melanogaster
157
158 # Drosophila melanogaster (FlyBase)
159 dm5.12.genome : Drosophila_melanogaster
160 dm5.22.genome : Drosophila_melanogaster
161 dm5.30.genome : Drosophila_melanogaster
162 dm5.31.genome : Drosophila_melanogaster
163 dm5.32.genome : Drosophila_melanogaster
164 dm5.34.genome : Drosophila_melanogaster
165 dm5.40.genome : Drosophila_melanogaster
166 dm5.42.genome : Drosophila_melanogaster
167
168 # Equus caballus genes (EquCab2) (ENSEMBL)
169 equCab2.60.genome : Equus_caballus
170 equCab2.61.genome : Equus_caballus
171
172 # Erinaceus europaeus genes (eriEur1) (ENSEMBL)
173 eriEur1.60.genome : Erinaceus_europaeus
174 eriEur1.61.genome : Erinaceus_europaeus
175
176 # Takifugu rubripes genes (FUGU4.0) (ENSEMBL)
177 fugu4.60.genome : Takifugu_rubripes
178 fugu4.61.genome : Takifugu_rubripes
179
180 # Gasterosteus aculeatus genes (BROADS1) (ENSEMBL)
181 gacu1.60.genome : Gasterosteus_aculeatus
182 gacu1.61.genome : Gasterosteus_aculeatus
183
184 # Gallus gallus genes (WASHUC2) (ENSEMBL)
185 ggallus2.59.genome : Gallus_gallus
186 ggallus2.60.genome : Gallus_gallus
187 ggallus2.61.genome : Gallus_gallus
188
189 # Glycine max
190 gmax1.09.genome: Glycine_Max
191 gmax1.09.reference: ftp://ftp.jgi-psf.org/pub/JGI_data/phytozome/v7.0/Gmax/
192
193 gmax1.09v8.genome: Glycine_Max
194 gmax1.09v8.reference: ftp://ftp.jgi-psf.org/pub/JGI_data/phytozome/v8.0/Gmax/
195
196 # Gorilla gorilla genes (gorGor3) (ENSEMBL)
197 gorGor3.60.genome : Gorilla_gorilla
198 gorGor3.61.genome : Gorilla_gorilla
199
200 # Human herpesvirus 1, complete genome. NCBI Reference Sequence: NC_001806.1
201 herpesvirus1.genome: Herpesvirus
202
203 # Homo sapiens genes (GRCh37.p2) (ENSEMBL)
204 hg36.54.genome : Homo_sapiens
205 hg37.59.genome : Homo_sapiens
206 hg37.60.genome : Homo_sapiens
207 hg37.61.genome : Homo_sapiens
208 hg37.63.genome : Homo_sapiens
209
210 # Homo sapiens (hg19) (UCSC)
211 hg19.genome : Homo_sapiens
212 hg19.reference : http://hgdownload.cse.ucsc.edu \ # Gene information from 'table' download
213 , http://hgdownload.cse.ucsc.edu/goldenPath/hg19/bigZips/chromFa.tar.gz \ # Genome sequence
214 , ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/mRNA_Prot/human.protein.faa.gz \ # Protein
215 , ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/mRNA_Prot/human.rna.fna.gz \ # CDS
216 , http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/refLink.txt.gz # Reflink
217
218
219 # HIV_nc_001802_1
220 hiv.genome : HIV
221
222 # Grosmannia clavigera
223 kw1407.2012.genome: Grosmannia_clavigera
224
225 # Leishmania genome
226 lmjf4.genome : LmajorFriedlin
227
228 # Loxodonta africana genes (loxAfr3) (ENSEMBL)
229 loxAfr3.60.genome : Loxodonta_africana
230 loxAfr3.61.genome : Loxodonta_africana
231
232 # Mycobacterium tuberculosis
233 m_tuberculosis.genome : Mycobacterium_tuberculosis
234 m_tuberculosis.reference : ftp://ftp.sanger.ac.uk/pub/pathogens/Mycobacterium/tuberculosis/
235
236 # Neurospora Crassa
237 ncrassa.genome : Neurospora_Crassa
238 ncrassa.reference : http://www.broadinstitute.org/annotation/genome/neurospora/MultiDownloads.html
239
240 # Ecoli K12 MG1655
241 NC_000913.genome : Escherichia_coli
242
243 # Clostridium difficile
244 NC_009089.1.genome : Clostridium_difficile
245
246 # Maize
247 maizeZmB73.genome : Maize_ZmB73
248 maizeZmB73.reference : http://ftp.maizesequence.org/
249
250 # Oryzias latipes genes (HdrR) (ENSEMBL)
251 medaka1.60.genome : Oryzias_latipes
252 medaka1.61.genome : Oryzias_latipes
253
254 # Macropus eugenii genes (Meug_1.0) (ENSEMBL)
255 meug1.0.60.genome : Macropus_eugenii
256 meug1.0.61.genome : Macropus_eugenii
257
258 # Microcebus murinus genes (micMur1) (ENSEMBL)
259 micMur1.60.genome : Microcebus_murinus
260 micMur1.61.genome : Microcebus_murinus
261
262 # Mus musculus genes (NCBIM37) (ENSEMBL)
263 mm37.genome : Mus_musculus
264 mm37.59.genome : Mus_musculus
265 mm37.60.genome : Mus_musculus
266 mm37.61.genome : Mus_musculus
267
268 # Macaca mulatta genes (MMUL_1.0) (ENSEMBL)
269 mmul1.60.genome : Macaca_mulatta
270 mmul1.61.genome : Macaca_mulatta
271
272 # Mycobacterium marinum M strain genome, version 31012012
273 mmm.2012.genome : Mycobacterium_marinum_M
274
275 # Monodelphis domestica genes (monDom5) (ENSEMBL)
276 monDom5.60.genome : Monodelphis_domestica
277 monDom5.61.genome : Monodelphis_domestica
278
279 # Mycoplasma pneumoninae FH
280 myco_fh.genome : Mycoplasma_pneumoninae_FH
281
282 # Mycoplasma pneumoninae M129
283 myco_m129.genome : Mycoplasma_pneumoninae_M129
284
285 # Myotis lucifugus genes (myoLuc1) (ENSEMBL)
286 myoLuc1.60.genome : Myotis_lucifugus
287 myoLuc1.61.genome : Myotis_lucifugus
288
289 # Ornithorhynchus anatinus genes (OANA5) (ENSEMBL)
290 oana5.60.genome : Ornithorhynchus_anatinus
291 oana5.61.genome : Ornithorhynchus_anatinus
292
293 # Ochotona princeps genes (OchPri2.0) (ENSEMBL)
294 ochPri2.60.genome : Ochotona_princeps
295 ochPri2.61.genome : Ochotona_princeps
296
297 # Oryctolagus cuniculus genes (oryCun2.0) (ENSEMBL)
298 oryCun2.60.genome : Oryctolagus_cuniculus
299 oryCun2.61.genome : Oryctolagus_cuniculus
300
301 # Pseudomonas aeruginosa, N_008463
302 paeru.PA01.genome : Pseudomonas_aeruginosa
303 paeru.PA01.chromosomes : NC_002516.2
304 paeru.PA01.NC_002516.2.codonTable: Bacterial_and_Plant_Plastid
305
306 # Pseudomonas aeruginosa, N_008463
307 paeru.PA14.genome : Pseudomonas_aeruginosa
308 paeru.PA14.chromosomes : NC_008463.1
309 paeru.PA14.NC_008463.1.codonTable: Bacterial_and_Plant_Plastid
310
311 # Peromyscus leucopus (white footed deer mice)
312 peromyscus.genome : Peromyscus leucopus
313
314 # Plasmodium falciparum
315 plasmo72.genome: Plasmodium_falciparum
316 plasmo72.reference: http://plasmodb.org/common/downloads/release-7.2/Pfalciparum/
317
318 # Peach (Prunus persica).
319 ppersica139.genome : Peach
320 ppersica139.reference : ftp://ftp.plantgdb.org/download/Genomes/PeGDB/
321
322 # Pseudomonas fluorescens
323 pfluo.SBW25.NC_009444.genome : Pseudomonas_fluorescens
324 pfluo.SBW25.NC_009444.chromosomes : NC_009444.1
325 pfluo.SBW25.NC_009444.NC_009444.1.codonTable: Bacterial_and_Plant_Plastid
326
327 # Pseudomonas fluorescens
328 pfluo.SBW25.NC_012660.genome : Pseudomonas_fluorescens
329 pfluo.SBW25.NC_012660.chromosomes : NC_012660.1
330 pfluo.SBW25.NC_012660.NC_012660.1.codonTable: Bacterial_and_Plant_Plastid
331
332 # Pongo pygmaeus abelii genes (PPYG2) (ENSEMBL)
333 ppyg2.60.genome : Pongo_pygmaeus
334 ppyg2.61.genome : Pongo_pygmaeus
335
336 # Procavia capensis genes (proCap1) (ENSEMBL)
337 proCap1.60.genome : Procavia_capensis
338 proCap1.61.genome : Procavia_capensis
339
340 # Pteropus vampyrus genes (pteVam1) (ENSEMBL)
341 pteVam1.60.genome : Pteropus_vampyrus
342 pteVam1.61.genome : Pteropus_vampyrus
343
344 # Rattus norvegicus genes (RGSC3.4) (ENSEMBL)
345 rat3.4.59.genome : Rattus_norvegicus
346 rat3.4.60.genome : Rattus_norvegicus
347 rat3.4.61.genome : Rattus_norvegicus
348
349 # Rice: http://rapdb.dna.affrc.go.jp/download/index.html
350 rice5.genome: Rice
351 rice5.reference: http://rapdb.dna.affrc.go.jp/download/index.html
352
353 rice6.1.genome: Rice
354 rice6.1.reference: ftp://ftp.plantbiology.msu.edu,ftp://ftp.plantbiology.msu.edu/pub/data/Eukaryotic_Projects/o_sativa/annotation_dbs/
355
356 # Saccharomyces cerevisiae genes (SGD1.01) (ENSEMBL)
357 sacCer2.genome : Saccharomyces_cerevisiae
358 sacCer2.59.genome : Saccharomyces_cerevisiae
359 sacCer2.60.genome : Saccharomyces_cerevisiae
360 sacCer2.61.genome : Saccharomyces_cerevisiae
361
362 # SCU49845
363 SCU49845.genome : SCU49845
364
365 # HIV virus
366 SIVmac239.genome : HIV
367 SIVmac239.reference : http://www.ncbi.nlm.nih.gov/nuccore/334647
368
369 # Tomato
370 SL2.40.genome : Tomato
371 SL2.40.reference : ftp://ftp.solgenomics.net/,ftp://ftp.solgenomics.net/genomes/Solanum_lycopersicum/wgs/assembly/build_2.40/S_lycopersicum_chromosomes.2.40.fa.gz,http://solgenomics.net/itag/release/2.3/list_files(ITAG2.3_gene_models.gff3)
372
373 # Sorex araneus genes (sorAra1) (ENSEMBL)
374 sorAra1.60.genome : Sorex_araneus
375 sorAra1.61.genome : Sorex_araneus
376
377 # Spermophilus tridecemlineatus genes (speTri1) (ENSEMBL)
378 speTri1.60.genome : Spermophilus_tridecemlineatus
379 speTri1.61.genome : Spermophilus_tridecemlineatus
380
381 # Schizosaccharomyces pombe (fission yeast).
382 spombe.genome : Schizosaccharomyces_pombe
383 spombe.reference : ftp://ftp.sanger.ac.uk/pub/yeast/pombe/GFF
384
385 # Sus scrofa genes (Sscrofa9) (ENSEMBL)
386 sScrofa9.60.genome : Sus_scrofa
387 sScrofa9.61.genome : Sus_scrofa
388
389 # Taeniopygia guttata genes (taeGut3.2.4) (ENSEMBL)
390 taeGut3.2.4.60.genome : Taeniopygia_guttata
391 taeGut3.2.4.61.genome : Taeniopygia_guttata
392
393 # Tarsius syrichta genes (tarSyr1) (ENSEMBL)
394 tarSyr1.60.genome : Tarsius_syrichta
395 tarSyr1.61.genome : Tarsius_syrichta
396
397 # Echinops telfairi genes (TENREC) (ENSEMBL)
398 tenrec1.60.genome : Echinops_telfairi
399 tenrec1.61.genome : Echinops_telfairi
400
401 # Used for debugging
402 test.genome : TestCase
403 testHg3761Chr15.genome : TestCase
404 testHg3761Chr16.genome : TestCase
405 testHg3763Chr1.genome : TestCase
406 testHg3763Chr20.genome : TestCase
407 testHg3763ChrY.genome : TestCase
408 testHg3765Chr22.genome : TestCase
409 testCase.genome : TestCase
410 testCaseHg.chromosomes: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, X, Y
411 test_ENSG00000158062.genome : TestCase
412
413 # Tetraodon nigroviridis genes (TETRAODON8.0) (ENSEMBL)
414 tetraodon8.60.genome : Tetraodon_nigroviridis
415 tetraodon8.61.genome : Tetraodon_nigroviridis
416
417 # Tupaia belangeri genes (tupBel1) (ENSEMBL)
418 tupBel1.60.genome : Tupaia_belangeri
419 tupBel1.61.genome : Tupaia_belangeri
420
421 # Meleagris_gallopavo (Turkey)
422 turkey.UMD2.61.genome : Meleagris_gallopavo
423
424 # Tursiops truncatus genes (turTru1) (ENSEMBL)
425 turTru1.60.genome : Tursiops_truncatus
426 turTru1.61.genome : Tursiops_truncatus
427
428 # Bos taurus : University of Maryland version 3.1
429 UMD3_1.genome : Bos_taurus
430
431 # Vaccinia WR (NCBIM37) (ENSEMBL) gi|29692106|gb|AY243312.1|
432 vacwr.genome : Vaccinia_Western_Reserve
433
434 # Vibrio Cholerae
435 vibrio.genome : Vibrio Cholerae
436 vibrio.chromosomes : NC_002505.1, NC_002506.1
437 vibrio.NC_002505.1.codonTable : Bacterial_and_Plant_Plastid
438 vibrio.NC_002506.1.codonTable : Bacterial_and_Plant_Plastid
439
440 # Vicugna pacos genes (vicPac1) (ENSEMBL)
441 vicPac1.60.genome : Vicugna_pacos
442 vicPac1.61.genome : Vicugna_pacos
443
444 # Xenopus tropicalis genes
445 xtrop4.1.60.genome : Xenopus_tropicalis
446 xtrop4.1.61.genome : Xenopus_tropicalis
447
448 # Xenopus tropicalis
449 xtrop7.1.genome : Xenopus_tropicalis
450 xtrop7.1.reference : ftp://ftp.xenbase.org/pub/Genomics/JGI/Xentr7.1/
451
452 #---
453 # Ensembl 63 versions
454 #---
455
456 ailMel1.63.genome : Ailuropoda_melanoleuca
457 ailMel1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
458
459 AnoCar2.0.63.genome : Anolis_carolinensis
460 AnoCar2.0.63.reference : ftp://ftp.ensembl.org/pub/release-63/
461
462 Btau_4.0.63.genome : Bos_taurus
463 Btau_4.0.63.reference : ftp://ftp.ensembl.org/pub/release-63/
464
465 WS220.63.genome : Caenorhabditis_elegans
466 WS220.63.reference : ftp://ftp.ensembl.org/pub/release-63/
467
468 C_jacchus3.2.1.63.genome : Callithrix_jacchus
469 C_jacchus3.2.1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
470
471 BROADD2.63.genome : Canis_familiaris
472 BROADD2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
473
474 cavPor3.63.genome : Cavia_porcellus
475 cavPor3.63.reference : ftp://ftp.ensembl.org/pub/release-63/
476
477 choHof1.63.genome : Choloepus_hoffmanni
478 choHof1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
479
480 JGI2.63.genome : Ciona_intestinalis
481 JGI2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
482
483 CSAV2.0.63.genome : Ciona_savignyi
484 CSAV2.0.63.reference : ftp://ftp.ensembl.org/pub/release-63/
485
486 Zv9.63.genome : Danio_rerio
487 Zv9.63.reference : ftp://ftp.ensembl.org/pub/release-63/
488
489 dasNov2.63.genome : Dasypus_novemcinctus
490 dasNov2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
491
492 dipOrd1.63.genome : Dipodomys_ordii
493 dipOrd1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
494
495 BDGP5.25.63.genome : Drosophila_melanogaster
496 BDGP5.25.63.reference : ftp://ftp.ensembl.org/pub/release-63/
497
498 TENREC.63.genome : Echinops_telfairi
499 TENREC.63.reference : ftp://ftp.ensembl.org/pub/release-63/
500
501 EquCab2.63.genome : Equus_caballus
502 EquCab2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
503
504 HEDGEHOG.63.genome : Erinaceus_europaeus
505 HEDGEHOG.63.reference : ftp://ftp.ensembl.org/pub/release-63/
506
507 CAT.63.genome : Felis_catus
508 CAT.63.reference : ftp://ftp.ensembl.org/pub/release-63/
509
510 WASHUC2.63.genome : Gallus_gallus
511 WASHUC2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
512
513 BROADS1.63.genome : Gasterosteus_aculeatus
514 BROADS1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
515
516 gorGor3.63.genome : Gorilla_gorilla
517 gorGor3.63.reference : ftp://ftp.ensembl.org/pub/release-63/
518
519 GRCh37.63.genome : Homo_sapiens
520 GRCh37.63.reference : ftp://ftp.ensembl.org/pub/release-63/
521
522 loxAfr3.63.genome : Loxodonta_africana
523 loxAfr3.63.reference : ftp://ftp.ensembl.org/pub/release-63/
524
525 MMUL_1.63.genome : Macaca_mulatta
526 MMUL_1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
527
528 Meug_1.0.63.genome : Macropus_eugenii
529 Meug_1.0.63.reference : ftp://ftp.ensembl.org/pub/release-63/
530
531 UMD2.63.genome : Meleagris_gallopavo
532 UMD2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
533
534 micMur1.63.genome : Microcebus_murinus
535 micMur1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
536
537 BROADO5.63.genome : Monodelphis_domestica
538 BROADO5.63.reference : ftp://ftp.ensembl.org/pub/release-63/
539
540 NCBIM37.63.genome : Mus_musculus
541 NCBIM37.63.reference : ftp://ftp.ensembl.org/pub/release-63/
542
543 Myoluc2.0.63.genome : Myotis_lucifugus
544 Myoluc2.0.63.reference : ftp://ftp.ensembl.org/pub/release-63/
545
546 Nleu1.0.63.genome : Nomascus_leucogenys
547 Nleu1.0.63.reference : ftp://ftp.ensembl.org/pub/release-63/
548
549 pika.63.genome : Ochotona_princeps
550 pika.63.reference : ftp://ftp.ensembl.org/pub/release-63/
551
552 OANA5.63.genome : Ornithorhynchus_anatinus
553 OANA5.63.reference : ftp://ftp.ensembl.org/pub/release-63/
554
555 oryCun2.63.genome : Oryctolagus_cuniculus
556 oryCun2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
557
558 MEDAKA1.63.genome : Oryzias_latipes
559 MEDAKA1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
560
561 BUSHBABY1.63.genome : Otolemur_garnettii
562 BUSHBABY1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
563
564 CHIMP2.1.63.genome : Pan_troglodytes
565 CHIMP2.1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
566
567 PPYG2.63.genome : Pongo_abelii
568 PPYG2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
569
570 proCap1.63.genome : Procavia_capensis
571 proCap1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
572
573 pteVam1.63.genome : Pteropus_vampyrus
574 pteVam1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
575
576 RGSC3.4.63.genome : Rattus_norvegicus
577 RGSC3.4.63.reference : ftp://ftp.ensembl.org/pub/release-63/
578
579 EF3.63.genome : Saccharomyces_cerevisiae
580 EF3.63.reference : ftp://ftp.ensembl.org/pub/release-63/
581
582 COMMON_SHREW1.63.genome : Sorex_araneus
583 COMMON_SHREW1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
584
585 SQUIRREL.63.genome : Spermophilus_tridecemlineatus
586 SQUIRREL.63.reference : ftp://ftp.ensembl.org/pub/release-63/
587
588 Sscrofa9.63.genome : Sus_scrofa
589 Sscrofa9.63.reference : ftp://ftp.ensembl.org/pub/release-63/
590
591 taeGut3.2.4.63.genome : Taeniopygia_guttata
592 taeGut3.2.4.63.reference : ftp://ftp.ensembl.org/pub/release-63/
593
594 FUGU4.63.genome : Takifugu_rubripes
595 FUGU4.63.reference : ftp://ftp.ensembl.org/pub/release-63/
596
597 tarSyr1.63.genome : Tarsius_syrichta
598 tarSyr1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
599
600 TETRAODON8.63.genome : Tetraodon_nigroviridis
601 TETRAODON8.63.reference : ftp://ftp.ensembl.org/pub/release-63/
602
603 TREESHREW.63.genome : Tupaia_belangeri
604 TREESHREW.63.reference : ftp://ftp.ensembl.org/pub/release-63/
605
606 turTru1.63.genome : Tursiops_truncatus
607 turTru1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
608
609 vicPac1.63.genome : Vicugna_pacos
610 vicPac1.63.reference : ftp://ftp.ensembl.org/pub/release-63/
611
612 JGI_4.2.63.genome : Xenopus_tropicalis
613 JGI_4.2.63.reference : ftp://ftp.ensembl.org/pub/release-63/
614
615 #---
616 # Ensembl 64 versions
617 #---
618
619 ailMel1.64.genome : Ailuropoda_melanoleuca
620 ailMel1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
621
622 AnoCar2.0.64.genome : Anolis_carolinensis
623 AnoCar2.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
624
625 UMD3.1.64.genome : Bos_taurus
626 UMD3.1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
627
628 WS220.64.genome : Caenorhabditis_elegans
629 WS220.64.reference : ftp://ftp.ensembl.org/pub/release-64/
630
631 C_jacchus3.2.1.64.genome : Callithrix_jacchus
632 C_jacchus3.2.1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
633
634 BROADD2.64.genome : Canis_familiaris
635 BROADD2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
636
637 cavPor3.64.genome : Cavia_porcellus
638 cavPor3.64.reference : ftp://ftp.ensembl.org/pub/release-64/
639
640 choHof1.64.genome : Choloepus_hoffmanni
641 choHof1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
642
643 JGI2.64.genome : Ciona_intestinalis
644 JGI2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
645
646 CSAV2.0.64.genome : Ciona_savignyi
647 CSAV2.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
648
649 Zv9.64.genome : Danio_rerio
650 Zv9.64.reference : ftp://ftp.ensembl.org/pub/release-64/
651
652 dasNov2.64.genome : Dasypus_novemcinctus
653 dasNov2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
654
655 dipOrd1.64.genome : Dipodomys_ordii
656 dipOrd1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
657
658 BDGP5.25.64.genome : Drosophila_melanogaster
659 BDGP5.25.64.reference : ftp://ftp.ensembl.org/pub/release-64/
660
661 TENREC.64.genome : Echinops_telfairi
662 TENREC.64.reference : ftp://ftp.ensembl.org/pub/release-64/
663
664 EquCab2.64.genome : Equus_caballus
665 EquCab2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
666
667 HEDGEHOG.64.genome : Erinaceus_europaeus
668 HEDGEHOG.64.reference : ftp://ftp.ensembl.org/pub/release-64/
669
670 CAT.64.genome : Felis_catus
671 CAT.64.reference : ftp://ftp.ensembl.org/pub/release-64/
672
673 WASHUC2.64.genome : Gallus_gallus
674 WASHUC2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
675
676 BROADS1.64.genome : Gasterosteus_aculeatus
677 BROADS1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
678
679 gorGor3.1.64.genome : Gorilla_gorilla
680 gorGor3.1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
681
682 GRCh37.64.genome : Homo_sapiens
683 GRCh37.64.reference : ftp://ftp.ensembl.org/pub/release-64/
684
685 loxAfr3.64.genome : Loxodonta_africana
686 loxAfr3.64.reference : ftp://ftp.ensembl.org/pub/release-64/
687
688 MMUL_1.64.genome : Macaca_mulatta
689 MMUL_1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
690
691 Meug_1.0.64.genome : Macropus_eugenii
692 Meug_1.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
693
694 UMD2.64.genome : Meleagris_gallopavo
695 UMD2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
696
697 micMur1.64.genome : Microcebus_murinus
698 micMur1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
699
700 BROADO5.64.genome : Monodelphis_domestica
701 BROADO5.64.reference : ftp://ftp.ensembl.org/pub/release-64/
702
703 NCBIM37.64.genome : Mus_musculus
704 NCBIM37.64.reference : ftp://ftp.ensembl.org/pub/release-64/
705
706 Myoluc2.0.64.genome : Myotis_lucifugus
707 Myoluc2.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
708
709 Nleu1.0.64.genome : Nomascus_leucogenys
710 Nleu1.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
711
712 pika.64.genome : Ochotona_princeps
713 pika.64.reference : ftp://ftp.ensembl.org/pub/release-64/
714
715 OANA5.64.genome : Ornithorhynchus_anatinus
716 OANA5.64.reference : ftp://ftp.ensembl.org/pub/release-64/
717
718 oryCun2.64.genome : Oryctolagus_cuniculus
719 oryCun2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
720
721 MEDAKA1.64.genome : Oryzias_latipes
722 MEDAKA1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
723
724 BUSHBABY1.64.genome : Otolemur_garnettii
725 BUSHBABY1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
726
727 CHIMP2.1.64.genome : Pan_troglodytes
728 CHIMP2.1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
729
730 Petromyzon_marinus_7.0.64.genome : Petromyzon_marinus
731 Petromyzon_marinus_7.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
732
733 PPYG2.64.genome : Pongo_abelii
734 PPYG2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
735
736 proCap1.64.genome : Procavia_capensis
737 proCap1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
738
739 pteVam1.64.genome : Pteropus_vampyrus
740 pteVam1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
741
742 RGSC3.4.64.genome : Rattus_norvegicus
743 RGSC3.4.64.reference : ftp://ftp.ensembl.org/pub/release-64/
744
745 EF3.64.genome : Saccharomyces_cerevisiae
746 EF3.64.reference : ftp://ftp.ensembl.org/pub/release-64/
747
748 DEVIL7.0.64.genome : Sarcophilus_harrisii
749 DEVIL7.0.64.reference : ftp://ftp.ensembl.org/pub/release-64/
750
751 COMMON_SHREW1.64.genome : Sorex_araneus
752 COMMON_SHREW1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
753
754 SQUIRREL.64.genome : Spermophilus_tridecemlineatus
755 SQUIRREL.64.reference : ftp://ftp.ensembl.org/pub/release-64/
756
757 Sscrofa9.64.genome : Sus_scrofa
758 Sscrofa9.64.reference : ftp://ftp.ensembl.org/pub/release-64/
759
760 taeGut3.2.4.64.genome : Taeniopygia_guttata
761 taeGut3.2.4.64.reference : ftp://ftp.ensembl.org/pub/release-64/
762
763 FUGU4.64.genome : Takifugu_rubripes
764 FUGU4.64.reference : ftp://ftp.ensembl.org/pub/release-64/
765
766 tarSyr1.64.genome : Tarsius_syrichta
767 tarSyr1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
768
769 TETRAODON8.64.genome : Tetraodon_nigroviridis
770 TETRAODON8.64.reference : ftp://ftp.ensembl.org/pub/release-64/
771
772 TREESHREW.64.genome : Tupaia_belangeri
773 TREESHREW.64.reference : ftp://ftp.ensembl.org/pub/release-64/
774
775 turTru1.64.genome : Tursiops_truncatus
776 turTru1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
777
778 vicPac1.64.genome : Vicugna_pacos
779 vicPac1.64.reference : ftp://ftp.ensembl.org/pub/release-64/
780
781 JGI_4.2.64.genome : Xenopus_tropicalis
782 JGI_4.2.64.reference : ftp://ftp.ensembl.org/pub/release-64/
783
784 #---
785 # Ensembl 65 versions
786 #---
787
788 ailMel1.65.genome : Ailuropoda_melanoleuca
789 ailMel1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
790
791 AnoCar2.0.65.genome : Anolis_carolinensis
792 AnoCar2.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
793
794 UMD3.1.65.genome : Bos_taurus
795 UMD3.1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
796
797 WS220.65.genome : Caenorhabditis_elegans
798 WS220.65.reference : ftp://ftp.ensembl.org/pub/release-65/
799
800 C_jacchus3.2.1.65.genome : Callithrix_jacchus
801 C_jacchus3.2.1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
802
803 BROADD2.65.genome : Canis_familiaris
804 BROADD2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
805
806 cavPor3.65.genome : Cavia_porcellus
807 cavPor3.65.reference : ftp://ftp.ensembl.org/pub/release-65/
808
809 choHof1.65.genome : Choloepus_hoffmanni
810 choHof1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
811
812 JGI2.65.genome : Ciona_intestinalis
813 JGI2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
814
815 CSAV2.0.65.genome : Ciona_savignyi
816 CSAV2.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
817
818 Zv9.65.genome : Danio_rerio
819 Zv9.65.reference : ftp://ftp.ensembl.org/pub/release-65/
820
821 dasNov2.65.genome : Dasypus_novemcinctus
822 dasNov2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
823
824 dipOrd1.65.genome : Dipodomys_ordii
825 dipOrd1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
826
827 BDGP5.25.65.genome : Drosophila_melanogaster
828 BDGP5.25.65.reference : ftp://ftp.ensembl.org/pub/release-65/
829
830 TENREC.65.genome : Echinops_telfairi
831 TENREC.65.reference : ftp://ftp.ensembl.org/pub/release-65/
832
833 EquCab2.65.genome : Equus_caballus
834 EquCab2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
835
836 HEDGEHOG.65.genome : Erinaceus_europaeus
837 HEDGEHOG.65.reference : ftp://ftp.ensembl.org/pub/release-65/
838
839 CAT.65.genome : Felis_catus
840 CAT.65.reference : ftp://ftp.ensembl.org/pub/release-65/
841
842 WASHUC2.65.genome : Gallus_gallus
843 WASHUC2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
844
845 BROADS1.65.genome : Gasterosteus_aculeatus
846 BROADS1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
847
848 gorGor3.1.65.genome : Gorilla_gorilla
849 gorGor3.1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
850
851 GRCh37.65.genome : Homo_sapiens
852 GRCh37.65.reference : ftp://ftp.ensembl.org/pub/release-65/
853
854 loxAfr3.65.genome : Loxodonta_africana
855 loxAfr3.65.reference : ftp://ftp.ensembl.org/pub/release-65/
856
857 MMUL_1.65.genome : Macaca_mulatta
858 MMUL_1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
859
860 Meug_1.0.65.genome : Macropus_eugenii
861 Meug_1.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
862
863 UMD2.65.genome : Meleagris_gallopavo
864 UMD2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
865
866 micMur1.65.genome : Microcebus_murinus
867 micMur1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
868
869 BROADO5.65.genome : Monodelphis_domestica
870 BROADO5.65.reference : ftp://ftp.ensembl.org/pub/release-65/
871
872 NCBIM37.65.genome : Mus_musculus
873 NCBIM37.65.reference : ftp://ftp.ensembl.org/pub/release-65/
874
875 Myoluc2.0.65.genome : Myotis_lucifugus
876 Myoluc2.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
877
878 Nleu1.0.65.genome : Nomascus_leucogenys
879 Nleu1.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
880
881 pika.65.genome : Ochotona_princeps
882 pika.65.reference : ftp://ftp.ensembl.org/pub/release-65/
883
884 OANA5.65.genome : Ornithorhynchus_anatinus
885 OANA5.65.reference : ftp://ftp.ensembl.org/pub/release-65/
886
887 oryCun2.65.genome : Oryctolagus_cuniculus
888 oryCun2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
889
890 MEDAKA1.65.genome : Oryzias_latipes
891 MEDAKA1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
892
893 BUSHBABY1.65.genome : Otolemur_garnettii
894 BUSHBABY1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
895
896 CHIMP2.1.65.genome : Pan_troglodytes
897 CHIMP2.1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
898
899 Petromyzon_marinus_7.0.65.genome : Petromyzon_marinus
900 Petromyzon_marinus_7.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
901
902 PPYG2.65.genome : Pongo_abelii
903 PPYG2.65.reference : ftp://ftp.ensembl.org/pub/release-65/
904
905 proCap1.65.genome : Procavia_capensis
906 proCap1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
907
908 pteVam1.65.genome : Pteropus_vampyrus
909 pteVam1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
910
911 RGSC3.4.65.genome : Rattus_norvegicus
912 RGSC3.4.65.reference : ftp://ftp.ensembl.org/pub/release-65/
913
914 EF4.65.genome : Saccharomyces_cerevisiae
915 EF4.65.reference : ftp://ftp.ensembl.org/pub/release-65/
916
917 DEVIL7.0.65.genome : Sarcophilus_harrisii
918 DEVIL7.0.65.reference : ftp://ftp.ensembl.org/pub/release-65/
919
920 COMMON_SHREW1.65.genome : Sorex_araneus
921 COMMON_SHREW1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
922
923 SQUIRREL.65.genome : Spermophilus_tridecemlineatus
924 SQUIRREL.65.reference : ftp://ftp.ensembl.org/pub/release-65/
925
926 Sscrofa9.65.genome : Sus_scrofa
927 Sscrofa9.65.reference : ftp://ftp.ensembl.org/pub/release-65/
928
929 taeGut3.2.4.65.genome : Taeniopygia_guttata
930 taeGut3.2.4.65.reference : ftp://ftp.ensembl.org/pub/release-65/
931
932 FUGU4.65.genome : Takifugu_rubripes
933 FUGU4.65.reference : ftp://ftp.ensembl.org/pub/release-65/
934
935 tarSyr1.65.genome : Tarsius_syrichta
936 tarSyr1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
937
938 TETRAODON8.65.genome : Tetraodon_nigroviridis
939 TETRAODON8.65.reference : ftp://ftp.ensembl.org/pub/release-65/
940
941 TREESHREW.65.genome : Tupaia_belangeri
942 TREESHREW.65.reference : ftp://ftp.ensembl.org/pub/release-65/
943
944 turTru1.65.genome : Tursiops_truncatus
945 turTru1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
946
947 vicPac1.65.genome : Vicugna_pacos
948 vicPac1.65.reference : ftp://ftp.ensembl.org/pub/release-65/
949
950 #---
951 # Ensembl 66 versions
952 #---
953
954 ailMel1.66.genome : Ailuropoda_melanoleuca
955 ailMel1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
956
957 AnoCar2.0.66.genome : Anolis_carolinensis
958 AnoCar2.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
959
960 UMD3.1.66.genome : Bos_taurus
961 UMD3.1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
962
963 WS220.66.genome : Caenorhabditis_elegans
964 WS220.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
965
966 C_jacchus3.2.1.66.genome : Callithrix_jacchus
967 C_jacchus3.2.1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
968
969 BROADD2.66.genome : Canis_familiaris
970 BROADD2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
971
972 cavPor3.66.genome : Cavia_porcellus
973 cavPor3.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
974
975 choHof1.66.genome : Choloepus_hoffmanni
976 choHof1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
977
978 KH.66.genome : Ciona_intestinalis
979 KH.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
980
981 CSAV2.0.66.genome : Ciona_savignyi
982 CSAV2.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
983
984 Zv9.66.genome : Danio_rerio
985 Zv9.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
986
987 dasNov2.66.genome : Dasypus_novemcinctus
988 dasNov2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
989
990 dipOrd1.66.genome : Dipodomys_ordii
991 dipOrd1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
992
993 BDGP5.66.genome : Drosophila_melanogaster
994 BDGP5.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
995
996 TENREC.66.genome : Echinops_telfairi
997 TENREC.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
998
999 EquCab2.66.genome : Equus_caballus
1000 EquCab2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1001
1002 HEDGEHOG.66.genome : Erinaceus_europaeus
1003 HEDGEHOG.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1004
1005 CAT.66.genome : Felis_catus
1006 CAT.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1007
1008 gadMor1.66.genome : Gadus_morhua
1009 gadMor1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1010
1011 WASHUC2.66.genome : Gallus_gallus
1012 WASHUC2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1013
1014 BROADS1.66.genome : Gasterosteus_aculeatus
1015 BROADS1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1016
1017 gorGor3.1.66.genome : Gorilla_gorilla
1018 gorGor3.1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1019
1020 GRCh37.66.genome : Homo_sapiens
1021 GRCh37.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1022
1023 LatCha1.66.genome : Latimeria_chalumnae
1024 LatCha1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1025
1026 loxAfr3.66.genome : Loxodonta_africana
1027 loxAfr3.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1028
1029 MMUL_1.66.genome : Macaca_mulatta
1030 MMUL_1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1031
1032 Meug_1.0.66.genome : Macropus_eugenii
1033 Meug_1.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1034
1035 UMD2.66.genome : Meleagris_gallopavo
1036 UMD2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1037
1038 micMur1.66.genome : Microcebus_murinus
1039 micMur1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1040
1041 BROADO5.66.genome : Monodelphis_domestica
1042 BROADO5.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1043
1044 NCBIM37.66.genome : Mus_musculus
1045 NCBIM37.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1046
1047 Myoluc2.0.66.genome : Myotis_lucifugus
1048 Myoluc2.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1049
1050 Nleu1.0.66.genome : Nomascus_leucogenys
1051 Nleu1.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1052
1053 pika.66.genome : Ochotona_princeps
1054 pika.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1055
1056 OANA5.66.genome : Ornithorhynchus_anatinus
1057 OANA5.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1058
1059 oryCun2.66.genome : Oryctolagus_cuniculus
1060 oryCun2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1061
1062 MEDAKA1.66.genome : Oryzias_latipes
1063 MEDAKA1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1064
1065 OtoGar3.66.genome : Otolemur_garnettii
1066 OtoGar3.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1067
1068 CHIMP2.1.4.66.genome : Pan_troglodytes
1069 CHIMP2.1.4.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1070
1071 Pmarinus_7.0.66.genome : Petromyzon_marinus
1072 Pmarinus_7.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1073
1074 PPYG2.66.genome : Pongo_abelii
1075 PPYG2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1076
1077 proCap1.66.genome : Procavia_capensis
1078 proCap1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1079
1080 pteVam1.66.genome : Pteropus_vampyrus
1081 pteVam1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1082
1083 RGSC3.4.66.genome : Rattus_norvegicus
1084 RGSC3.4.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1085
1086 EF4.66.genome : Saccharomyces_cerevisiae
1087 EF4.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1088
1089 DEVIL7.0.66.genome : Sarcophilus_harrisii
1090 DEVIL7.0.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1091
1092 COMMON_SHREW1.66.genome : Sorex_araneus
1093 COMMON_SHREW1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1094
1095 SQUIRREL.66.genome : Spermophilus_tridecemlineatus
1096 SQUIRREL.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1097
1098 Sscrofa9.66.genome : Sus_scrofa
1099 Sscrofa9.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1100
1101 taeGut3.2.4.66.genome : Taeniopygia_guttata
1102 taeGut3.2.4.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1103
1104 FUGU4.66.genome : Takifugu_rubripes
1105 FUGU4.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1106
1107 tarSyr1.66.genome : Tarsius_syrichta
1108 tarSyr1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1109
1110 TETRAODON8.66.genome : Tetraodon_nigroviridis
1111 TETRAODON8.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1112
1113 TREESHREW.66.genome : Tupaia_belangeri
1114 TREESHREW.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1115
1116 turTru1.66.genome : Tursiops_truncatus
1117 turTru1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1118
1119 vicPac1.66.genome : Vicugna_pacos
1120 vicPac1.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1121
1122 JGI_4.2.66.genome : Xenopus_tropicalis
1123 JGI_4.2.66.reference : ftp://ftp.ensembl.org/pub/release-66/gtf/
1124
1125 #-------------------------------------------------------------------------------
1126 # Codon tables
1127 #
1128 # Format: It's a comma separated "codon/aminoAcid[+*]" list
1129 # Where 'codon' is in uppper case, aminoAcid is a one letter coce, '+' denotes start codon and '*' denotes stop codon
1130 #
1131 # References: http://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi
1132 # ftp://ftp.ncbi.nih.gov/entrez/misc/data/gc.prt
1133 #-------------------------------------------------------------------------------
1134
1135 codon.Standard: TTT/F, TTC/F, TTA/L, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1136 codon.Vertebrate_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/M+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/*, AGG/*, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1137 codon.Yeast_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/T, CTC/T, CTA/T, CTG/T, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/M+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1138 codon.Mold_Mitochondrial: TTT/F, TTC/F, TTA/L+, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1139 codon.Protozoan_Mitochondrial: TTT/F, TTC/F, TTA/L+, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1140 codon.Coelenterate: TTT/F, TTC/F, TTA/L+, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1141 codon.Mitochondrial: TTT/F, TTC/F, TTA/L+, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1142 codon.Mycoplasma: TTT/F, TTC/F, TTA/L+, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1143 codon.Spiroplasma: TTT/F, TTC/F, TTA/L+, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1144 codon.Invertebrate_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/M+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/S, AGG/S, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1145 codon.Ciliate_Nuclear: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/Q, TAG/Q, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1146 codon.Dasycladacean_Nuclear: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/Q, TAG/Q, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1147 codon.Hexamita_Nuclear: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/Q, TAG/Q, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1148 codon.Echinoderm_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/N, AAG/K, AGT/S, AGC/S, AGA/S, AGG/S, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1149 codon.Flatworm_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/N, AAG/K, AGT/S, AGC/S, AGA/S, AGG/S, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1150 codon.Euplotid_Nuclear: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/C, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1151 codon.Bacterial_and_Plant_Plastid: TTT/F, TTC/F, TTA/L, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I+, ATA/I+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1152 codon.Alternative_Yeast_Nuclear: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/S+, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1153 codon.Ascidian_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L+, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/M+, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/G, AGG/G, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1154 codon.Alternative_Flatworm_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/Y, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/N, AAG/K, AGT/S, AGC/S, AGA/S, AGG/S, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1155 codon.Blepharisma_Macronuclear: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/Q, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1156 codon.Chlorophycean_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/L, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1157 codon.Trematode_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/W, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/M, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/N, AAG/K, AGT/S, AGC/S, AGA/S, AGG/S, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1158 codon.Scenedesmus_obliquus_Mitochondrial: TTT/F, TTC/F, TTA/L, TTG/L, TCT/S, TCC/S, TCA/*, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/L, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1159 codon.Thraustochytrium_Mitochondrial: TTT/F, TTC/F, TTA/*, TTG/L, TCT/S, TCC/S, TCA/S, TCG/S, TAT/Y, TAC/Y, TAA/*, TAG/*, TGT/C, TGC/C, TGA/*, TGG/W, CTT/L, CTC/L, CTA/L, CTG/L, CCT/P, CCC/P, CCA/P, CCG/P, CAT/H, CAC/H, CAA/Q, CAG/Q, CGT/R, CGC/R, CGA/R, CGG/R, ATT/I+, ATC/I, ATA/I, ATG/M+, ACT/T, ACC/T, ACA/T, ACG/T, AAT/N, AAC/N, AAA/K, AAG/K, AGT/S, AGC/S, AGA/R, AGG/R, GTT/V, GTC/V, GTA/V, GTG/V+, GCT/A, GCC/A, GCA/A, GCG/A, GAT/D, GAC/D, GAA/E, GAG/E, GGT/G, GGC/G, GGA/G, GGG/G
1160