Agelaius phoeniceus isolate BioBank_ID:100140 chromosome W, Agelaius phoeniceus 1.1, whole genome shotgun sequence.
Agelaius phoeniceus (red-winged blackbird)
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Passeriformes; Passeroidea; Icteridae; Agelaius.
REFSEQ INFORMATION: The reference sequence is identical to\nCM036749.1.\nAssembly name: Agelaius phoeniceus 1.1\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Brood Parasitic Bird Genomes\nConsortium on 2022/12/05. The original whole-genome shotgun project\nhas the accession JAIWQD000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Brood Parasitic Bird Genomes Consortium\nAssembly Method :: HiFasm v. APR-2021\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 38.0x\nSequencing Technology :: PacBio RSII\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Status :: Full annotation\nAnnotation Name :: GCF_020745825.1-RS_2023_03\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 10.1\nAnnotation Method :: Gnomon; cmsearch; tRNAscan-SE\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\nAnnotation Date :: 03/22/2023\n##Genome-Annotation-Data-END##
neuromedin-K receptor-like; Derived by automated computational analysis using gene prediction method: Gnomon.
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 3 bases in 2 codons; deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 3 bases in 2 codons; deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: neuromedin-K receptor-like
ubiquitin-associated protein 1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
COORDINATES: polyA evidence [ECO:0006239]
Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132438; Derived by automated computational analysis using gene prediction method: Gnomon.
DDB1- and CUL4-associated factor 12-like; Derived by automated computational analysis using gene prediction method: Gnomon.
DDB1- and CUL4-associated factor 12-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 Proteins
uncharacterized LOC129132427; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132434; Derived by automated computational analysis using gene prediction method: Gnomon.
transfer RNA glutamic acid (anticodon CUC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
protein FAM219A-like; Derived by automated computational analysis using gene prediction method: Gnomon.
protein FAM219A-like, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins
protein FAM219A-like, transcript variant X3
protein FAM219A-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
protein FAM219A-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins
transfer RNA lysine (anticodon CUU); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
uncharacterized LOC129132394; Derived by automated computational analysis using gene prediction method: Gnomon.
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
uncharacterized LOC129132395; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132433; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132396; Derived by automated computational analysis using gene prediction method: Gnomon.
CBP80/20-dependent translation initiation factor-like; Derived by automated computational analysis using gene prediction method: Gnomon.
CBP80/20-dependent translation initiation factor-like
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: substituted 1 base at 1 genomic stop codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: CBP80/20-dependent translation initiation factor-like
mothers against decapentaplegic homolog 7-like; Derived by automated computational analysis using gene prediction method: Gnomon.
mothers against decapentaplegic homolog 7-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins
mothers against decapentaplegic homolog 7-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 12 Proteins
mothers against decapentaplegic homolog 7-like isoform X1
mothers against decapentaplegic homolog 7-like isoform X2
UPF0729 protein C18orf32-like; Derived by automated computational analysis using gene prediction method: Gnomon.
60S ribosomal protein L17-like; Derived by automated computational analysis using gene prediction method: Gnomon.
60S ribosomal protein L17-like, transcript variant X2
60S ribosomal protein L17-like, transcript variant X1
60S ribosomal protein L17-like isoform X1
60S ribosomal protein L17-like isoform X2
small nucleolar RNA SNORD58; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.6:RF00151
Derived by automated computational analysis using gene prediction method: cmsearch.
uncharacterized LOC129132397; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132398; Derived by automated computational analysis using gene prediction method: Gnomon.
forkhead box protein D1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
transcription factor BTF3-like; Derived by automated computational analysis using gene prediction method: Gnomon.
transcription factor BTF3-like, transcript variant X1
transcription factor BTF3-like, transcript variant X2
transcription factor BTF3-like isoform X1
transcription factor BTF3-like isoform X2
mitochondrial nicotinamide adenine dinucleotide transporter SLC25A51-like; Derived by automated computational analysis using gene prediction method: Gnomon.
mitochondrial nicotinamide adenine dinucleotide transporter SLC25A51-like
creatine kinase S-type, mitochondrial; Derived by automated computational analysis using gene prediction method: Gnomon.
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 28 Proteins
homer protein homolog 1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 18 Proteins
uncharacterized LOC129132390; Derived by automated computational analysis using gene prediction method: Gnomon.
arrestin domain-containing protein 3-like; Derived by automated computational analysis using gene prediction method: Gnomon.
arrestin domain-containing protein 3-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 Proteins
secretory carrier-associated membrane protein 1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
secretory carrier-associated membrane protein 1-like
F-BAR domain only protein 2-like; Derived by automated computational analysis using gene prediction method: Gnomon.
E3 ubiquitin-protein ligase KCMF1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
ras-related protein Rab-7a-like; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132402; Derived by automated computational analysis using gene prediction method: Gnomon.
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: uncharacterized protein LOC129132402
mothers against decapentaplegic homolog 2-like; Derived by automated computational analysis using gene prediction method: Gnomon.
mothers against decapentaplegic homolog 2-like, transcript variant X1
mothers against decapentaplegic homolog 2-like, transcript variant X2
mothers against decapentaplegic homolog 2-like isoform X1
mothers against decapentaplegic homolog 2-like isoform X2
ATP synthase subunit alpha, mitochondrial-like; Derived by automated computational analysis using gene prediction method: Gnomon.
ATP synthase subunit alpha, mitochondrial-like
protein C18orf25-like; Derived by automated computational analysis using gene prediction method: Gnomon.
protein C18orf25-like, transcript variant X1
protein C18orf25-like, transcript variant X2
E3 SUMO-protein ligase PIAS2-like; Derived by automated computational analysis using gene prediction method: Gnomon.
E3 SUMO-protein ligase PIAS2-like, transcript variant X3
E3 SUMO-protein ligase PIAS2-like, transcript variant X1
E3 SUMO-protein ligase PIAS2-like, transcript variant X2
E3 SUMO-protein ligase PIAS2-like isoform X1
E3 SUMO-protein ligase PIAS2-like isoform X2
E3 SUMO-protein ligase PIAS2-like isoform X3
uncharacterized LOC129132404; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129132405; Derived by automated computational analysis using gene prediction method: Gnomon.
SET-binding protein-like; Derived by automated computational analysis using gene prediction method: Gnomon.
heterogeneous nuclear ribonucleoprotein K; Derived by automated computational analysis using gene prediction method: Gnomon.
heterogeneous nuclear ribonucleoprotein K, transcript variant X3
heterogeneous nuclear ribonucleoprotein K, transcript variant X6
heterogeneous nuclear ribonucleoprotein K, transcript variant X2
heterogeneous nuclear ribonucleoprotein K, transcript variant X4
heterogeneous nuclear ribonucleoprotein K, transcript variant X5
heterogeneous nuclear ribonucleoprotein K, transcript variant X1
heterogeneous nuclear ribonucleoprotein K isoform X2
heterogeneous nuclear ribonucleoprotein K isoform X1
MLV-related proviral Env polyprotein-like; Derived by automated computational analysis using gene prediction method: Gnomon.
MLV-related proviral Env polyprotein-like
uncharacterized LOC129132408; Derived by automated computational analysis using gene prediction method: Gnomon.
spindlin-Z-like; Derived by automated computational analysis using gene prediction method: Gnomon.
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 23 Proteins
uncharacterized LOC129132425; Derived by automated computational analysis using gene prediction method: Gnomon.
RNA-binding E3 ubiquitin-protein ligase MEX3C-like; Derived by automated computational analysis using gene prediction method: Gnomon.
RNA-binding E3 ubiquitin-protein ligase MEX3C-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 21 Proteins
uncharacterized LOC129132439; Derived by automated computational analysis using gene prediction method: Gnomon.
mothers against decapentaplegic homolog 4-like; Derived by automated computational analysis using gene prediction method: Gnomon.
mothers against decapentaplegic homolog 4-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 19 Proteins