Gallus gallus isolate bGalGal1 chromosome 30, bGalGal1.mat.broiler.GRCg7b, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Galloanserae; Galliformes; Phasianidae; Phasianinae; Gallus.
REFSEQ INFORMATION: The reference sequence is identical to\nCM028511.1.\nAssembly name: bGalGal1.mat.broiler.GRCg7b\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Vertebrate Genomes Project on\n2021/01/19. The original whole-genome shotgun project has the\naccession JAENSK000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Vertebrate Genomes Project\nAssembly Date :: 22-JUL-2020\nAssembly Method :: TrioCanu v. 1.8; purge_dups v. 1.0.0;\n Scaff 10x v. 4.1.0; Bionano solve v.\n 3.2.1_04122018; Salsa2 HiC v. 2.2; Arrow\n polishing and gap filling v.\n SMRTLink7.0.1; Freebayes v. 1.3.1; gEVAL\n manual curation v. 2020-07-22; VGP trio\n assembly pipeline v. 1.6\nAssembly Name :: bGalGal1.mat.broiler.GRCg7b\nDiploid :: Principal pseudohaplotype\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 102.01x\nSequencing Technology :: PacBio Sequel I CLR; Illumina NovaSeq;\n Arima Genomics Hi-C; Bionano Genomics DLS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Gallus gallus Annotation Release 106\nAnnotation Version :: 106\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 9.0\nAnnotation Method :: Best-placed RefSeq; Gnomon\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\n##Genome-Annotation-Data-END##
Derived by automated computational analysis using gene prediction method: Gnomon.
adrenodoxin-like protein, mitochondrial, transcript variant X1
COORDINATES: cap analysis [ECO:0007248] and polyA evidence [ECO:0006239]
adrenodoxin-like protein, mitochondrial, transcript variant X2
ribonucleoprotein PTB-binding 1-like, transcript variant X1
ribonucleoprotein PTB-binding 1-like, transcript variant X2
ribonucleoprotein PTB-binding 1 isoform X2
ribonucleoprotein PTB-binding 1 isoform X1
ribonucleoprotein PTB-binding 1-like, transcript variant X3
ribonucleoprotein PTB-binding 1 isoform X3
ribonucleoprotein PTB-binding 1-like, transcript variant X4
ribonucleoprotein PTB-binding 1 isoform X4
tyrosine kinase 2, transcript variant X1
non-receptor tyrosine-protein kinase TYK2 isoform X1
tyrosine kinase 2, transcript variant X2
tyrosine kinase 2, transcript variant X3
tyrosine kinase 2, transcript variant X4
tyrosine kinase 2, transcript variant X5
non-receptor tyrosine-protein kinase TYK2 isoform X2
cell division cycle 37; Derived by automated computational analysis using gene prediction method: BestRefSeq.
Derived by automated computational analysis using gene prediction method: BestRefSeq.
propagated from UniProtKB/Swiss-Prot (O57476.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite
trafficking protein particle complex 5; Derived by automated computational analysis using gene prediction method: BestRefSeq.
trafficking protein particle complex subunit 5
COORDINATES: polyA evidence [ECO:0006239]
ecotropic viral integration site 5 like, transcript variant X5
ecotropic viral integration site 5 like, transcript variant X6
ecotropic viral integration site 5 like, transcript variant X4
ecotropic viral integration site 5 like, transcript variant X3
ecotropic viral integration site 5 like, transcript variant X2
ecotropic viral integration site 5 like, transcript variant X1
Fc fragment of IgE receptor II, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 30 long SRA reads, and 88% coverage of the annotated genomic feature by RNAseq alignments
uncharacterized protein FCER2 isoform X1
proto-oncogene vav-like, transcript variant X1
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 1 base in 1 codon
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: proto-oncogene vav-like
complement component 3; Derived by automated computational analysis using gene prediction method: BestRefSeq.
similar to RNA sequence, mRNA (same species):RefSeq:NM_001396143.1
annotated by transcript or proteomic data
The RefSeq transcript has 6 substitutions compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq.
similar to AA sequence (same species):RefSeq:NP_001383072.1
The RefSeq protein has 2 substitutions compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq.
COORDINATES: ab initio prediction:SignalP:4.0
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 99% coverage of the annotated genomic feature by RNAseq alignments
ilvB acetolactate synthase like, transcript variant X1
ilvB acetolactate synthase like, transcript variant X2
ilvB acetolactate synthase like, transcript variant X4
ilvB acetolactate synthase like, transcript variant X3
ilvB acetolactate synthase like, transcript variant X5
ilvB acetolactate synthase like, transcript variant X7
ilvB acetolactate synthase like, transcript variant X6
synapse defective Rho GTPase homolog 1, transcript variant X1
MAPK-interacting and spindle-stabilizing protein-like
macrophage mannose receptor 1-like, transcript variant X2
macrophage mannose receptor 1-like, transcript variant X1
macrophage mannose receptor 1-like isoform X2
macrophage mannose receptor 1-like isoform X1
uncharacterized LOC121107796, transcript variant X2
uncharacterized LOC121107796, transcript variant X1
patatin like phospholipase domain containing 6; Derived by automated computational analysis using gene prediction method: BestRefSeq,Gnomon.
patatin like phospholipase domain containing 6, transcript variant X15
patatin like phospholipase domain containing 6, transcript variant X19
patatin like phospholipase domain containing 6, transcript variant X17
patatin like phospholipase domain containing 6, transcript variant X16
patatin like phospholipase domain containing 6, transcript variant X13
patatin like phospholipase domain containing 6, transcript variant X10
patatin like phospholipase domain containing 6
similar to RNA sequence, mRNA (same species):RefSeq:NM_001113453.1
The RefSeq transcript has 18 substitutions, 3 non-frameshifting indels compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq.
patatin-like phospholipase domain-containing protein 6 isoform X13
patatin-like phospholipase domain-containing protein 6 isoform X17
patatin-like phospholipase domain-containing protein 6 isoform X15
patatin-like phospholipase domain-containing protein 6 isoform X14
patatin-like phospholipase domain-containing protein 6 isoform X11
patatin-like phospholipase domain-containing protein 6 isoform X8
similar to AA sequence (same species):RefSeq:NP_001106924.1
patatin-like phospholipase domain-containing protein 6
patatin like phospholipase domain containing 6, transcript variant X3
patatin like phospholipase domain containing 6, transcript variant X2
patatin like phospholipase domain containing 6, transcript variant X5
patatin like phospholipase domain containing 6, transcript variant X4
patatin like phospholipase domain containing 6, transcript variant X6
patatin like phospholipase domain containing 6, transcript variant X12
patatin like phospholipase domain containing 6, transcript variant X8
patatin like phospholipase domain containing 6, transcript variant X9
patatin like phospholipase domain containing 6, transcript variant X7
patatin like phospholipase domain containing 6, transcript variant X1
patatin like phospholipase domain containing 6, transcript variant X14
patatin like phospholipase domain containing 6, transcript variant X11
patatin-like phospholipase domain-containing protein 6 isoform X2
patatin-like phospholipase domain-containing protein 6 isoform X12
patatin-like phospholipase domain-containing protein 6 isoform X9
patatin-like phospholipase domain-containing protein 6 isoform X4
patatin-like phospholipase domain-containing protein 6 isoform X10
patatin-like phospholipase domain-containing protein 6 isoform X6
patatin-like phospholipase domain-containing protein 6 isoform X7
patatin-like phospholipase domain-containing protein 6 isoform X5
patatin-like phospholipase domain-containing protein 6 isoform X1
patatin-like phospholipase domain-containing protein 6 isoform X3
patatin like phospholipase domain containing 6, transcript variant X18
patatin-like phospholipase domain-containing protein 6 isoform X16
patatin like phospholipase domain containing 6, transcript variant X20
patatin-like phospholipase domain-containing protein 6 isoform X18
cytochrome P450 family 4 subfamily F member 11; Derived by automated computational analysis using gene prediction method: BestRefSeq.
cytochrome P450 family 4 subfamily F member 11
peptidoglycan recognition protein 2; Derived by automated computational analysis using gene prediction method: BestRefSeq,Gnomon.
peptidoglycan recognition protein 2, transcript variant X1
N-acetylmuramoyl-L-alanine amidase isoform X1
N-acetylmuramoyl-L-alanine amidase precursor
microRNA mir-12266-1; Derived by automated computational analysis using gene prediction method: BestRefSeq.
A-kinase anchoring protein 8 like; Derived by automated computational analysis using gene prediction method: BestRefSeq.
A-kinase anchor protein 8-like, transcript variant X1
A-kinase anchor protein 8-like, transcript variant X2
A-kinase anchor protein 8-like, transcript variant X4
A-kinase anchor protein 8-like, transcript variant X5
A-kinase anchor protein 8-like, transcript variant X6
A-kinase anchor protein 8-like, transcript variant X7
A-kinase anchor protein 8-like, transcript variant X3
uncharacterized LOC121107790, transcript variant X1
GIPC PDZ domain containing family member 1
uncharacterized LOC112531003, transcript variant X2
uncharacterized LOC112531003, transcript variant X1
DnaJ heat shock protein family (Hsp40) member B1, transcript variant X1
DnaJ heat shock protein family (Hsp40) member B1, transcript variant X2
dnaJ homolog subfamily B member 1 isoform X2
dnaJ homolog subfamily B member 1 isoform X1
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X14
very-long-chain enoyl-CoA reductase isoform X2
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X1
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X2
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X3
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X5
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X4
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X6
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X12
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X7
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X8
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X10
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X9
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X11
probable very-long-chain enoyl-CoA reductase art-1, transcript variant X13
very-long-chain enoyl-CoA reductase isoform X1
NADH:ubiquinone oxidoreductase subunit B7
similar to RNA sequence, mRNA (same species):INSD:BX950780.2
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 308 bases not found in genome assembly
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: added 281 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.
NADH dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7
coiled-coil and C2 domain-containing protein 1A-like, transcript variant X3
coiled-coil and C2 domain-containing protein 1A-like, transcript variant X2
coiled-coil and C2 domain-containing protein 1A-like, transcript variant X1
coiled-coil and C2 domain-containing protein 1A-like, transcript variant X4
coiled-coil and C2 domain-containing protein 1A isoform X4
coiled-coil and C2 domain-containing protein 1A isoform X2
coiled-coil and C2 domain-containing protein 1A isoform X1
coiled-coil and C2 domain-containing protein 1A isoform X3
break repair meiotic recombinase recruitment factor 1
nanos C2HC-type zinc finger 3, transcript variant X1
nanos C2HC-type zinc finger 3, transcript variant X4
nanos C2HC-type zinc finger 3, transcript variant X3
nanos C2HC-type zinc finger 3, transcript variant X2
leydig cell tumor 10 kDa protein homolog
methylthioribose-1-phosphate isomerase 1, transcript variant X2
methylthioribose-1-phosphate isomerase 1, transcript variant X1
microRNA mir-12288; Derived by automated computational analysis using gene prediction method: BestRefSeq.
similar to RNA sequence (same species):INSD:HAEK01025395.1
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 356 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 41% coverage of the annotated genomic feature by RNAseq alignments
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: added 170 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.
microtubule-associated serine/threonine-protein kinase 1-like
LOW QUALITY PROTEIN: microtubule-associated serine/threonine-protein kinase 1-like
lysophosphatidic acid receptor 2; Derived by automated computational analysis using gene prediction method: BestRefSeq,Gnomon.
lysophosphatidic acid receptor 2, transcript variant X1
lysophosphatidic acid receptor 2 isoform X1
uncharacterized LOC101750379, transcript variant X2
uncharacterized LOC101750379, transcript variant X1
pre-B-cell leukemia transcription factor 4
DSN1 homolog, MIS12 kinetochore complex component; Derived by automated computational analysis using gene prediction method: BestRefSeq,Gnomon.
DSN1 homolog, MIS12 kinetochore complex component, transcript variant X1
DSN1 homolog, MIS12 kinetochore complex component, transcript variant X2
kinetochore-associated protein DSN1 homolog isoform X1
DSN1 homolog, MIS12 kinetochore complex component
kinetochore-associated protein DSN1 homolog
multivesicular body subunit 12A; Derived by automated computational analysis using gene prediction method: BestRefSeq.
multivesicular body subunit 12A, transcript variant 3
multivesicular body subunit 12A, transcript variant 2
multivesicular body subunit 12A, transcript variant 1
multivesicular body subunit 12A, transcript variant 4
propagated from UniProtKB/Swiss-Prot (Q5ZJX7.1); Region: SH3-binding
endoplasmic reticulum transmembrane helix translocase isoform X4
endoplasmic reticulum transmembrane helix translocase isoform X3
endoplasmic reticulum transmembrane helix translocase isoform X2
endoplasmic reticulum transmembrane helix translocase isoform X1
coiled-coil-helix-coiled-coil-helix domain containing 5, transcript variant X2
coiled-coil-helix-coiled-coil-helix domain containing 5, transcript variant X1
coiled-coil-helix-coiled-coil-helix domain containing 5, transcript variant X3
coiled-coil-helix-coiled-coil-helix domain-containing protein 5
LIM homeobox transcription factor 1-alpha-like
LIM homeobox transcription factor 1-beta-like
hepatic lectin; Derived by automated computational analysis using gene prediction method: BestRefSeq.
N-acetylmethionine. /evidence=ECO:0000269|PubMed:7240175; propagated from UniProtKB/Swiss-Prot (P02707.1); acetylation site
propagated from UniProtKB/Swiss-Prot (P02707.1); transmembrane region
N-linked (GlcNAc...) asparagine. /evidence=ECO:0000269|PubMed:7240175; propagated from UniProtKB/Swiss-Prot (P02707.1); glycosylation site
F-box and leucine rich repeat protein 12, transcript variant X2
F-box and leucine rich repeat protein 12, transcript variant X1
peptidylprolyl cis/trans isomerase, NIMA-interacting 1
peptidyl-prolyl cis-trans isomerase NIMA-interacting 1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 long SRA reads, 14 Proteins, and 89% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 98% coverage of the annotated genomic feature by RNAseq alignments
eukaryotic translation initiation factor 3, subunit G
eukaryotic translation initiation factor 3 subunit G
DNA methyltransferase 1; Derived by automated computational analysis using gene prediction method: BestRefSeq,Gnomon.
DNA methyltransferase 1, transcript variant X4
DNA methyltransferase 1, transcript variant X7
DNA methyltransferase 1, transcript variant X6
DNA methyltransferase 1, transcript variant X3
DNA methyltransferase 1, transcript variant X5
DNA methyltransferase 1, transcript variant X2
DNA methyltransferase 1, transcript variant X1
similar to RNA sequence, mRNA (same species):RefSeq:NM_206952.1
The RefSeq transcript has 13 substitutions, 1 frameshift, 1 non-frameshifting indel compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq.
similar to AA sequence (same species):RefSeq:NP_996835.1
The RefSeq protein has 3 substitutions, 1 frameshift compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq.
propagated from UniProtKB/Swiss-Prot (Q92072.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite
propagated from UniProtKB/Swiss-Prot (Q92072.1); Region: Interaction with PCNA. /evidence=ECO:0000269|PubMed:9302295
Important for activity. /evidence=ECO:0000250; propagated from UniProtKB/Swiss-Prot (Q92072.1); other site
Phosphoserine. /evidence=ECO:0000250; propagated from UniProtKB/Swiss-Prot (Q92072.1); phosphorylation site
propagated from UniProtKB/Swiss-Prot (Q92072.1); Region: 8 X 2 AA tandem repeats of K-G
propagated from UniProtKB/Swiss-Prot (Q92072.1); Region: S-adenosyl-L-methionine binding. /evidence=ECO:0000250|UniProtKB:P13864
propagated from UniProtKB/Swiss-Prot (Q92072.1); Region: S-adenosyl-L-methionine binding. /evidence=ECO:0000250|UniProtKB:P26358
DNA (cytosine-5)-methyltransferase 1 isoform X4
DNA (cytosine-5)-methyltransferase 1 isoform X7
DNA (cytosine-5)-methyltransferase 1 isoform X6
DNA (cytosine-5)-methyltransferase 1 isoform X3
DNA (cytosine-5)-methyltransferase 1 isoform X5
DNA (cytosine-5)-methyltransferase 1 isoform X2
DNA (cytosine-5)-methyltransferase 1 isoform X1
transcription elongation factor 1 homolog
acid phosphatase 5, tartrate resistant, transcript variant X1
tartrate-resistant acid phosphatase type 5 isoform X1
nuclear factor I X; Derived by automated computational analysis using gene prediction method: BestRefSeq.
nuclear factor I X, transcript variant 2
nuclear factor I X, transcript variant 1
isoform 2 is encoded by transcript variant 2; Derived by automated computational analysis using gene prediction method: BestRefSeq.
propagated from UniProtKB/Swiss-Prot (Q90932.1); Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite
propagated from UniProtKB/Swiss-Prot (Q90932.1); Region: 9aaTAD. /evidence=ECO:0000250|UniProtKB:Q14938
isoform 1 is encoded by transcript variant 1; Derived by automated computational analysis using gene prediction method: BestRefSeq.
growth arrest and DNA damage-inducible proteins-interacting protein 1 isoform X1
RAD23 homolog A, nucleotide excision repair protein, transcript variant X2
RAD23 homolog A, nucleotide excision repair protein, transcript variant X1
UV excision repair protein RAD23 homolog A isoform X2
UV excision repair protein RAD23 homolog A isoform X1
phenylalanyl-tRNA synthetase alpha subunit; Derived by automated computational analysis using gene prediction method: BestRefSeq,Gnomon.
phenylalanyl-tRNA synthetase alpha subunit, transcript variant X1
phenylalanine--tRNA ligase alpha subunit isoform X1
phenylalanyl-tRNA synthetase alpha subunit
phenylalanine--tRNA ligase alpha subunit
synaptonemal complex central element protein 2, transcript variant X3
synaptonemal complex central element protein 2, transcript variant X2
synaptonemal complex central element protein 2, transcript variant X1
synaptonemal complex central element protein 2
glutaryl-CoA dehydrogenase, mitochondrial
microtubule-associated serine/threonine-protein kinase 1-like, transcript variant X2
microtubule-associated serine/threonine-protein kinase 1-like, transcript variant X1
microtubule-associated serine/threonine-protein kinase 1 isoform X1
microtubule-associated serine/threonine-protein kinase 1 isoform X2
GEM interacting protein, transcript variant X1
GEM interacting protein, transcript variant X2
nucleoredoxin-like 1, transcript variant X2
nucleoredoxin-like 1, transcript variant X1
solute carrier family 27 member 1; Derived by automated computational analysis using gene prediction method: BestRefSeq.
long-chain fatty acid transport protein 1
6-phosphogluconolactonase; Derived by automated computational analysis using gene prediction method: BestRefSeq.
similar to RNA sequence, mRNA (same species):RefSeq:NM_001031588.1
The RefSeq transcript has 8 substitutions, 1 non-frameshifting indel compared to this genomic sequence; Derived by automated computational analysis using gene prediction method: BestRefSeq.
bromodomain containing 4, transcript variant X2
bromodomain containing 4, transcript variant X7
bromodomain containing 4, transcript variant X5
bromodomain containing 4, transcript variant X3
bromodomain containing 4, transcript variant X8
bromodomain containing 4, transcript variant X1
bromodomain containing 4, transcript variant X6
bromodomain containing 4, transcript variant X9
bromodomain containing 4, transcript variant X4
bromodomain containing 4, transcript variant X10
bromodomain-containing protein 4 isoform X1
bromodomain-containing protein 4 isoform X4
bromodomain-containing protein 4 isoform X2
bromodomain-containing protein 4 isoform X5
bromodomain-containing protein 4 isoform X3
epoxide hydrolase 3-like, transcript variant X1
LOW QUALITY PROTEIN: epoxide hydrolase 3-like isoform X1