##gff-version 3 # ---- # genome-build Felis_catus-6.2 # genome-build-accession NCBI_Assembly:GCF_000181335.1 # ---- # tRNA GENE and CDS records without strand and CDS as a child of gene. Also tRNA/exons of gene on opposite strand NC_001700.1 RefSeq gene 15038 16177 . . . ID=gene25009;Dbxref=GeneID:807931;Name=CYTB;gbkey=Gene;gene=CYTB;gene_synonym=cytB NC_001700.1 RefSeq CDS 15038 16177 . . 0 ID=cds29481;Parent=gene25009;Dbxref=Genbank:NP_008263.1;Name=NP_008263.1;gbkey=CDS;gene=CYTB;product=cytochrome b;protein_id=NP_008263.1;transl_table=2 NC_001700.1 RefSeq tRNA 16178 16247 . + . ID=rna33063;gbkey=tRNA;product=tRNA-Thr NC_001700.1 RefSeq exon 16178 16247 . + . ID=id354132;Parent=rna33063;gbkey=tRNA;product=tRNA-Thr NC_001700.1 RefSeq tRNA 16248 16314 . - . ID=rna33064;gbkey=tRNA;product=tRNA-Pro NC_001700.1 RefSeq exon 16248 16314 . - . ID=id354133;Parent=rna33064;gbkey=tRNA;product=tRNA-Pro # ---- # genome-build dere_caf1 # genome-build-accession NCBI_Assembly:GCF_000005135.1 # ---- # overlapping exons NW_001956548.1 RefSeq pseudogene 26531107 26534144 . + . ID=gene14757;Dbxref=FLYBASE:FBgn0103243,GeneID:6542396;Name=Dere\GG10940;gbkey=Gene;gene=Dere\GG10940;gene_biotype=pseudogene;gene_synonym=dere_GLEANR_10935,GG10940;locus_tag=Dere_GG10940;pseudo=true NW_001956548.1 RefSeq exon 26531107 26531132 . + . ID=id122119;Parent=gene14757;Dbxref=FLYBASE:FBgn0103243,GeneID:6542396;exon_number=1;gbkey=exon;gene=Dere\GG10940;number=1;pseudo=true NW_001956548.1 RefSeq exon 26532889 26533060 . + . ID=id122120;Parent=gene14757;Dbxref=FLYBASE:FBgn0103243,GeneID:6542396;exon_number=2;gbkey=exon;gene=Dere\GG10940;number=2;pseudo=true NW_001956548.1 RefSeq exon 26533060 26533133 . + . ID=id122121;Parent=gene14757;Dbxref=FLYBASE:FBgn0103243,GeneID:6542396;exon_number=3;gbkey=exon;gene=Dere\GG10940;number=3;pseudo=true NW_001956548.1 RefSeq exon 26533185 26533357 . + . ID=id122122;Parent=gene14757;Dbxref=FLYBASE:FBgn0103243,GeneID:6542396;exon_number=4;gbkey=exon;gene=Dere\GG10940;number=4;pseudo=true NW_001956548.1 RefSeq exon 26533936 26534144 . + . ID=id122123;Parent=gene14757;Dbxref=FLYBASE:FBgn0103243,GeneID:6542396;exon_number=5;gbkey=exon;gene=Dere\GG10940;number=5;pseudo=true # ---- # genome-build R64 # genome-build-accession NCBI_Assembly:GCF_000146045.2 # ---- # Yeast chrM only NC_001224.1 RefSeq gene 13818 26701 . + . ID=gene6402;Dbxref=GeneID:854598,SGD:S000007260;Name=COX1;gbkey=Gene;gene=COX1;gene_biotype=protein_coding;gene_synonym=OXI3;locus_tag=Q0045 NC_001224.1 RefSeq CDS 13818 13986 . + 0 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 16435 16470 . + 2 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 18954 18991 . + 2 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 20508 20984 . + 0 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 21995 22246 . + 0 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 23612 23746 . + 0 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 25318 25342 . + 0 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 NC_001224.1 RefSeq CDS 26229 26701 . + 2 ID=cds5989;Parent=gene6402;Dbxref=Genbank:NP_009305.1,GeneID:854598,SGD:S000007260;Name=NP_009305.1;Note=subunit I of cytochrome c oxidase (Complex IV)%3B Complex IV is the terminal member of the mitochondrial inner membrane electron transport chain%3B one of three mitochondrially-encoded subunits;gbkey=CDS;gene=COX1;product=cytochrome c oxidase subunit 1;protein_id=NP_009305.1;transl_table=3 # ---- # genome-build Xenopus_tropicalis_v9.1 # genome-build-accession NCBI_Assembly:GCF_000004195.3 # ---- # case on chr MT where gene is direct parent of CDS and the accession is # on the CDS. This is handled by specifying -useName -refseqHacks NC_006839.1 RefSeq gene 2792 3759 . + . ID=gene26974;Dbxref=GeneID:3283492;Name=ND1;gbkey=Gene;gene=ND1;gene_biotype=protein_coding NC_006839.1 RefSeq CDS 2792 3759 . + 0 ID=cds39761;Parent=gene26974;Dbxref=Genbank:YP_203370.1,GeneID:3283492;Name=YP_203370.1;Note=TAA stop codon is completed by the addition of 3' A residues to the mRNA;gbkey=CDS;gene=ND1;product=NADH dehydrogenase subunit 1;protein_id=YP_203370.1;transl_except=(pos:3758..3759%2Caa:TERM);transl_table=2 NC_006839.1 RefSeq gene 3969 5004 . + . ID=gene26975;Dbxref=GeneID:3283493;Name=ND2;gbkey=Gene;gene=ND2;gene_biotype=protein_coding NC_006839.1 RefSeq CDS 3969 5004 . + 0 ID=cds39762;Parent=gene26975;Dbxref=Genbank:YP_203371.1,GeneID:3283493;Name=YP_203371.1;Note=TAA stop codon is completed by the addition of 3' A residues to the mRNA;gbkey=CDS;gene=ND2;product=NADH dehydrogenase subunit 2;protein_id=YP_203371.1;transl_except=(pos:5004..5004%2Caa:TERM);transl_table=2 NC_006839.1 RefSeq gene 14258 15399 . + . ID=gene26986;Dbxref=GeneID:3283504;Name=CYTB;gbkey=Gene;gene=CYTB;gene_biotype=protein_coding NC_006839.1 RefSeq CDS 14258 15399 . + 0 ID=cds39773;Parent=gene26986;Dbxref=Genbank:YP_203382.1,GeneID:3283504;Name=YP_203382.1;Note=TAA stop codon is completed by the addition of 3' A residues to the mRNA;gbkey=CDS;gene=CYTB;product=cytochrome b;protein_id=YP_203382.1;transl_except=(pos:15398..15399%2Caa:TERM);transl_table=2 # --- # from GCF_000707805.1_CFSAN007451_01.0_genomic.gff.gz # where CDS from "Protein Homology" source doesn't have a name. # --- ##sequence-region NZ_JNTI01000141.1 1 815 ##species https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=670 NZ_JNTI01000141.1 RefSeq region 1 815 . + . ID=id216;Dbxref=taxon:670;collection-date=2012-08-24;country=USA:MD;gbkey=Src;genome=genomic;isolation-source=stool;mol_type=genomic DNA;nat-host=Homo sapiens;strain=CFSAN007451 NZ_JNTI01000141.1 RefSeq gene 1 262 . + . ID=gene4619;Name=EM97_RS47665;gbkey=Gene;gene_biotype=pseudogene;locus_tag=EM97_RS47665;old_locus_tag=EM97_23795;partial=true;pseudo=true;start_range=.,1 NZ_JNTI01000141.1 Protein Homology CDS 1 262 . + 1 ID=cds4555;Parent=gene4619;gbkey=CDS;partial=true;product=HAD family hydrolase;pseudo=true;start_range=.,1;transl_table=11 NZ_JNTI01000141.1 RefSeq gene 348 815 . - . ID=gene4620;Name=EM97_RS0128530;end_range=815,.;gbkey=Gene;gene_biotype=protein_coding;locus_tag=EM97_RS0128530;partial=true NZ_JNTI01000141.1 Protein Homology CDS 348 815 . - 0 ID=cds4556;Parent=gene4620;Dbxref=Genbank:WP_050549089.1;Name=WP_050549089.1;end_range=815,.;gbkey=CDS;partial=true;product=histone acetyltransferase;protein_id=WP_050549089.1;transl_table=11