From 5431116b83c413bedb25d797174f99b325e414eb Mon Sep 17 00:00:00 2001 From: jclaud01 <jean-baptiste.claude@ens-lyon.fr> Date: Mon, 12 Jun 2017 11:42:23 +0200 Subject: [PATCH] modify add feature in exon PFN1P1 (pseudogene) --- annot/tiny_v2.gff | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/annot/tiny_v2.gff b/annot/tiny_v2.gff index 2637b83..011aafc 100644 --- a/annot/tiny_v2.gff +++ b/annot/tiny_v2.gff @@ -104,6 +104,6 @@ NC_000001 GenBank exon 96494 96791 0 + 1 gene_id=exon000024;ID=exon000024;Dbxref NC_000001 GenBank exon 108617 108668 0 + 1 gene_id=exon000025;ID=exon000025;Dbxref=GeneID:11147;Parent=HHLA3.t02,HHLA3.r01;Name=HHLA3; NC_000001 GenBank CDS 96636 96791 0 + 1 gene_id=HHLA3.p03;ID=HHLA3.p03;Parent=HHLA3.t03;Dbxref=GI:81295798,CCDS:CCDS649.1,GeneID:11147,HGNC:HGNC:4906,MIM:604372;Name=HHLA3;Note=isoform 3 is encoded by transcript variant 3%3B Derived by automated computational analysis using gene prediction method: BestRefSeq.;codon_start=1;product=HERV-H LTR-associating protein 3 isoform 3;protein_id=NP_001031723.1;translation=length.76; NC_000001 GenBank CDS 108128 108202 0 + 1 gene_id=HHLA3.p03;ID=HHLA3.p03;Parent=HHLA3.t03;Dbxref=GI:81295798,CCDS:CCDS649.1,GeneID:11147,HGNC:HGNC:4906,MIM:604372;Name=HHLA3;Note=isoform 3 is encoded by transcript variant 3%3B Derived by automated computational analysis using gene prediction method: BestRefSeq.;codon_start=1;product=HERV-H LTR-associating protein 3 isoform 3;protein_id=NP_001031723.1;translation=length.76; -NC_000001a GenBank chromosome 1 3001 0 + 1 gene_id=NC_000001;ID=NC_000001;Alias=1;Dbxref=BioProject:PRJNA168,taxon:9606;Name=NC_000001;Note=Homo sapiens chromosome 1%2C GRCh37.p13 Primary Assembly.,REFSEQ INFORMATION: The reference sequence is identical to CM000663.1. [WARNING] On Feb 3,2014 this sequence was replaced by NC_000001.11. On Jun 10,2009 this sequence version replaced NC_000001.9. Assembly Name: GRCh37.p13 Primary Assembly The DNA sequence is composed of genomic sequence,primarily finished clones that were sequenced as part of the Human Genome Project. PCR products and WGS shotgun sequence have been added where necessary to fill gaps or correct errors. All such additions are manually curated by GRC staff. For more information see: http://genomereference.org. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Version :: Homo sapiens Annotation Release 105 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 5.1 Annotation Method :: Best-placed RefSeq,Gnomon Features Annotated :: Gene,mRNA,CDS,ncRNA ##Genome-Annotation-Data-END## ;chromosome=1;comment1=REFSEQ INFORMATION: The reference sequence is identical to CM000663.1. [WARNING] On Feb 3%2C 2014 this sequence was replaced by NC_000001.11. On Jun 10%2C 2009 this sequence version replaced NC_000001.9. Assembly Name: GRCh37.p13 Primary Assembly The DNA sequence is composed of genomic sequence%2C primarily finished clones that were sequenced as part of the Human Genome Project. PCR products and WGS shotgun sequence have been added where necessary to fill gaps or correct errors. All such additions are manually curated by GRC staff. For more information see: http://genomereference.org. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Version :: Homo sapiens Annotation Release 105 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 5.1 Annotation Method :: Best-placed RefSeq%3B Gnomon Features Annotated :: Gene%3B mRNA%3B CDS%3B ncRNA ##Genome-Annotation-Data-END## ;date=13-AUG-2013;mol_type=genomic DNA;organism=Homo sapiens; +NC_000001a GenBank chromosome 1 3001 0 + 1 gene_id=NC_000001a.chr;ID=NC_000001a.chr;Alias=1;Dbxref=BioProject:PRJNA168,taxon:9606;Name=NC_000001;Note=Homo sapiens chromosome 1%2C GRCh37.p13 Primary Assembly.,REFSEQ INFORMATION: The reference sequence is identical to CM000663.1. [WARNING] On Feb 3,2014 this sequence was replaced by NC_000001.11. On Jun 10,2009 this sequence version replaced NC_000001.9. Assembly Name: GRCh37.p13 Primary Assembly The DNA sequence is composed of genomic sequence,primarily finished clones that were sequenced as part of the Human Genome Project. PCR products and WGS shotgun sequence have been added where necessary to fill gaps or correct errors. All such additions are manually curated by GRC staff. For more information see: http://genomereference.org. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Version :: Homo sapiens Annotation Release 105 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 5.1 Annotation Method :: Best-placed RefSeq,Gnomon Features Annotated :: Gene,mRNA,CDS,ncRNA ##Genome-Annotation-Data-END## ;chromosome=1;comment1=REFSEQ INFORMATION: The reference sequence is identical to CM000663.1. [WARNING] On Feb 3%2C 2014 this sequence was replaced by NC_000001.11. On Jun 10%2C 2009 this sequence version replaced NC_000001.9. Assembly Name: GRCh37.p13 Primary Assembly The DNA sequence is composed of genomic sequence%2C primarily finished clones that were sequenced as part of the Human Genome Project. PCR products and WGS shotgun sequence have been added where necessary to fill gaps or correct errors. All such additions are manually curated by GRC staff. For more information see: http://genomereference.org. ##Genome-Annotation-Data-START## Annotation Provider :: NCBI Annotation Status :: Full annotation Annotation Version :: Homo sapiens Annotation Release 105 Annotation Pipeline :: NCBI eukaryotic genome annotation pipeline Annotation Software Version :: 5.1 Annotation Method :: Best-placed RefSeq%3B Gnomon Features Annotated :: Gene%3B mRNA%3B CDS%3B ncRNA ##Genome-Annotation-Data-END## ;date=13-AUG-2013;mol_type=genomic DNA;organism=Homo sapiens; NC_000001a GenBank pseudogene 1418 2229 0 - 1 gene_id=PFN1P1;ID=PFN1P1;Dbxref=GeneID:730138,HGNC:HGNC:42989;Name=PFN1P1;Note=profilin 1 pseudogene 1%3B Derived by automated computational analysis using gene prediction method: Curated Genomic.;pseudo=_no_value; -NC_000001a GenBank exon 1418 2229 0 - 1 gene_id=exon000026;ID=exon000026;Dbxref=GeneID:730138,HGNC:HGNC:42989;Name=PFN1P1;Note=profilin 1 pseudogene 1%3B Derived by automated computational analysis using gene prediction method: Curated Genomic.;pseudo=_no_value; +NC_000001a GenBank exon 1418 2229 0 - 1 gene_id=exon000026;Parent=PFN1P1;ID=exon000026;Dbxref=GeneID:730138,HGNC:HGNC:42989;Name=PFN1P1;Note=profilin 1 pseudogene 1%3B Derived by automated computational analysis using gene prediction method: Curated Genomic.;pseudo=_no_value; -- GitLab