diff test-data/test.gtf @ 0:7303183cdb87 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ensembl_vep commit 2db33cd5bcf5e2d7e3a43f11855c4cfc3b1b9f56
author iuc
date Wed, 11 May 2022 13:03:38 +0000
parents
children
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test.gtf	Wed May 11 13:03:38 2022 +0000
@@ -0,0 +1,20 @@
+21	havana	exon	2770	3326	.	-	.	gene_id "ENSG00000260583"; gene_version "1"; transcript_id "ENST00000567517"; transcript_version "1"; exon_number "1"; gene_name "AP000223.42"; gene_source "havana"; gene_biotype "antisense"; havana_gene "OTTHUMG00000172769"; havana_gene_version "1"; transcript_name "AP000223.42-001"; transcript_source "havana"; transcript_biotype "antisense"; havana_transcript "OTTHUMT00000420390"; havana_transcript_version "1"; exon_id "ENSE00002629631"; exon_version "1"; tag "basic"; transcript_support_level "NA";
+21	havana	gene	2770	3326	.	-	.	gene_id "ENSG00000260583"; gene_version "1"; gene_name "AP000223.42"; gene_source "havana"; gene_biotype "antisense"; havana_gene "OTTHUMG00000172769"; havana_gene_version "1";
+21	havana	transcript	2770	3326	.	-	.	gene_id "ENSG00000260583"; gene_version "1"; transcript_id "ENST00000567517"; transcript_version "1"; gene_name "AP000223.42"; gene_source "havana"; gene_biotype "antisense"; havana_gene "OTTHUMG00000172769"; havana_gene_version "1"; transcript_name "AP000223.42-001"; transcript_source "havana"; transcript_biotype "antisense"; havana_transcript "OTTHUMT00000420390"; havana_transcript_version "1"; tag "basic"; transcript_support_level "NA";
+21	ensembl_havana	three_prime_utr	5656	5706	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; tag "basic"; transcript_support_level "1";
+21	ensembl_havana	three_prime_utr	5656	5750	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	exon	5656	5754	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "11"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; exon_id "ENSE00003528074"; exon_version "1"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	exon	5656	5754	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; exon_number "10"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; exon_id "ENSE00003605259"; exon_version "1"; tag "basic"; transcript_support_level "1";
+21	ensembl_havana	gene	5656	27517	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4";
+21	ensembl_havana	transcript	5656	27517	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	transcript	5656	27517	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; tag "basic"; transcript_support_level "1";
+21	ensembl_havana	stop_codon	5707	5709	.	-	0	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; exon_number "10"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; tag "basic"; transcript_support_level "1";
+21	ensembl_havana	CDS	5710	5754	.	-	0	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; exon_number "10"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; protein_id "ENSP00000284967"; protein_version "6"; tag "basic"; transcript_support_level "1";
+21	ensembl_havana	stop_codon	5751	5753	.	-	0	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "11"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	CDS	5754	5754	.	-	1	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "11"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; protein_id "ENSP00000305682"; protein_version "7"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	CDS	7701	7789	.	-	0	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "10"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; protein_id "ENSP00000305682"; protein_version "7"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	exon	7701	7789	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "10"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; exon_id "ENSE00001149457"; exon_version "5"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	CDS	8835	8882	.	-	0	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "9"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; protein_id "ENSP00000305682"; protein_version "7"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	CDS	8835	8882	.	-	0	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; exon_number "9"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; protein_id "ENSP00000284967"; protein_version "6"; tag "basic"; transcript_support_level "1";
+21	ensembl_havana	exon	8835	8882	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000307301"; transcript_version "11"; exon_number "9"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-002"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS33522"; havana_transcript "OTTHUMT00000171195"; havana_transcript_version "2"; exon_id "ENSE00001017286"; exon_version "1"; tag "basic"; transcript_support_level "5";
+21	ensembl_havana	exon	8835	8882	.	-	.	gene_id "ENSG00000154719"; gene_version "13"; transcript_id "ENST00000352957"; transcript_version "8"; exon_number "9"; gene_name "MRPL39"; gene_source "ensembl_havana"; gene_biotype "protein_coding"; havana_gene "OTTHUMG00000078371"; havana_gene_version "4"; transcript_name "MRPL39-001"; transcript_source "ensembl_havana"; transcript_biotype "protein_coding"; tag "CCDS"; ccds_id "CCDS13573"; havana_transcript "OTTHUMT00000171194"; havana_transcript_version "1"; exon_id "ENSE00001017286"; exon_version "1"; tag "basic"; transcript_support_level "1";