Molothrus ater isolate BHLD 08-10-18 breed brown headed cowbird chromosome 39, BPBGC_Mater_1.1, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Passeriformes; Passeroidea; Icteridae; Molothrus.
REFSEQ INFORMATION: The reference sequence is identical to\nCM046322.1.\nAssembly name: BPBGC_Mater_1.1\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Brood Parasitic Bird Genomes\nConsortium on 2022/10/11. The original whole-genome shotgun project\nhas the accession JAAQZI000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Brood Parasitic Bird Genomes Consortium\nAssembly Date :: OCT-2019\nAssembly Method :: Canu v. OCT-2019\nAssembly Name :: BPBGC_Mater_1.1\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 200.0x\nSequencing Technology :: PacBio Sequel II\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Status :: Full annotation\nAnnotation Name :: GCF_012460135.2-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##
transfer RNA leucine (anticodon AAG); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
tripartite motif-containing protein 10-like; Derived by automated computational analysis using gene prediction method: Gnomon.
tripartite motif-containing protein 10-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
tripartite motif-containing protein 10-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon.
tripartite motif-containing protein 10-like
coiled-coil domain-containing protein 102B-like; Derived by automated computational analysis using gene prediction method: Gnomon.
coiled-coil domain-containing protein 102B-like, transcript variant X3
coiled-coil domain-containing protein 102B-like, transcript variant X2
coiled-coil domain-containing protein 102B-like, transcript variant X1
coiled-coil domain-containing protein 102B-like isoform X3
uncharacterized protein LOC118700853 isoform X2
uncharacterized protein LOC118700853 isoform X1
receptor for activated C kinase 1; Derived by automated computational analysis using gene prediction method: Gnomon.
COORDINATES: polyA evidence [ECO:0006239]
receptor of activated protein C kinase 1
tripartite motif containing 41; Derived by automated computational analysis using gene prediction method: Gnomon.
E3 ubiquitin-protein ligase TRIM7-like; Derived by automated computational analysis using gene prediction method: Gnomon.
E3 ubiquitin-protein ligase TRIM7-like, transcript variant X3
E3 ubiquitin-protein ligase TRIM7-like, transcript variant X1
E3 ubiquitin-protein ligase TRIM7-like, transcript variant X4
transfer RNA valine (anticodon CAC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
E3 ubiquitin-protein ligase TRIM7-like, transcript variant X2
E3 ubiquitin-protein ligase TRIM7-like isoform X1
E3 ubiquitin-protein ligase TRIM7-like isoform X2
E3 ubiquitin-protein ligase TRIM58-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: 15 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins
E3 ubiquitin-protein ligase TRIM39-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: 36 Proteins
transfer RNA glutamic acid (anticodon CUC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA leucine (anticodon CAA); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA lysine (anticodon CUU); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA glutamic acid (anticodon UUC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA valine (anticodon AAC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
tripartite motif containing 7; 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: 34 Proteins
transfer RNA threonine (anticodon UGU); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA proline (anticodon UGG); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA asparagine (anticodon GUU); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
interleukin 4 induced 1; 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: 13 Proteins
zinc finger protein CKR1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
zinc finger protein CKR1-like, transcript variant X3
zinc finger protein CKR1-like, transcript variant X1
zinc finger protein CKR1-like, transcript variant X2
zinc finger protein CKR1-like isoform X1
zinc finger protein CKR1-like isoform X2
zinc finger protein CKR1-like isoform X3
zinc finger protein 692-like; Derived by automated computational analysis using gene prediction method: Gnomon.
histone-lysine N-methyltransferase SETD1A-like; Derived by automated computational analysis using gene prediction method: Gnomon.
histone-lysine N-methyltransferase SETD1A-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 2 bases in 2 codons
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 2 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: histone-lysine N-methyltransferase SETD1A-like
uncharacterized LOC129047076; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129047076, transcript variant X2
uncharacterized LOC129047076, transcript variant X1
uncharacterized LOC129047077; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC129047079; Derived by automated computational analysis using gene prediction method: Gnomon.
sirtuin 2; Derived by automated computational analysis using gene prediction method: Gnomon.
NAD-dependent protein deacetylase sirtuin-2
NFKB inhibitor beta; Derived by automated computational analysis using gene prediction method: Gnomon.
seryl-tRNA synthetase 2, mitochondrial; Derived by automated computational analysis using gene prediction method: Gnomon.
seryl-tRNA synthetase 2, mitochondrial, transcript variant X2
seryl-tRNA synthetase 2, mitochondrial, transcript variant X1
serine--tRNA ligase, mitochondrial isoform X2
serine--tRNA ligase, mitochondrial isoform X1
mitochondrial ribosomal protein S12; Derived by automated computational analysis using gene prediction method: Gnomon.
28S ribosomal protein S12, mitochondrial
p21 (RAC1) activated kinase 4; Derived by automated computational analysis using gene prediction method: Gnomon.
p21 (RAC1) activated kinase 4, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 47 Proteins
p21 (RAC1) activated kinase 4, transcript variant X2
serine/threonine-protein kinase PAK 4 isoform X1
serine/threonine-protein kinase PAK 4 isoform X2
syncollin; 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: 6 Proteins
leucine rich repeat and fibronectin type III domain containing 1; Derived by automated computational analysis using gene prediction method: Gnomon.
leucine rich repeat and fibronectin type III domain containing 1
leucine-rich repeat and fibronectin type III domain-containing protein 1
sterile alpha motif domain containing 4B; Derived by automated computational analysis using gene prediction method: Gnomon.
sterile alpha motif domain containing 4B
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: 14 Proteins
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: protein Smaug homolog 2
gastric inhibitory polypeptide receptor-like; Derived by automated computational analysis using gene prediction method: Gnomon.
gastric inhibitory polypeptide receptor-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins
optic atrophy 3 protein homolog; Derived by automated computational analysis using gene prediction method: Gnomon.
optic atrophy 3 protein homolog, transcript variant X1
optic atrophy 3 protein homolog, transcript variant X2
optic atrophy 3 protein homolog isoform X1
optic atrophy 3 protein homolog isoform X2
vasodilator stimulated phosphoprotein; Derived by automated computational analysis using gene prediction method: Gnomon.
reticulon-3-like; Derived by automated computational analysis using gene prediction method: Gnomon.
FosB proto-oncogene, AP-1 transcription factor subunit; Derived by automated computational analysis using gene prediction method: Gnomon.
FosB proto-oncogene, AP-1 transcription factor subunit, transcript variant X1
FosB proto-oncogene, AP-1 transcription factor subunit, transcript variant X2
FosB proto-oncogene, AP-1 transcription factor subunit, transcript variant X3
FosB proto-oncogene, AP-1 transcription factor subunit, transcript variant X4
exocyst complex component 3 like 2; Derived by automated computational analysis using gene prediction method: Gnomon.
exocyst complex component 3-like protein 2
uncharacterized LOC118700864; Derived by automated computational analysis using gene prediction method: Gnomon.
microtubule affinity regulating kinase 4; Derived by automated computational analysis using gene prediction method: Gnomon.
microtubule affinity regulating kinase 4
MAP/microtubule affinity-regulating kinase 4
basic salivary proline-rich protein 1-like; Derived by automated computational analysis using gene prediction method: Gnomon.
basic salivary proline-rich protein 1-like
branched chain keto acid dehydrogenase E1 subunit alpha; Derived by automated computational analysis using gene prediction method: Gnomon.
branched chain keto acid dehydrogenase E1 subunit alpha, transcript variant X1
2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial isoform X1
branched chain keto acid dehydrogenase E1 subunit alpha, transcript variant X2
2-oxoisovalerate dehydrogenase subunit alpha, mitochondrial isoform X2
homeobox protein OTX2-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: 3 Proteins
enoyl-CoA hydratase 1; 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: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins
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: delta(3,5)-Delta(2,4)-dienoyl-CoA isomerase, mitochondrial
heterogeneous nuclear ribonucleoprotein L; Derived by automated computational analysis using gene prediction method: Gnomon.
heterogeneous nuclear ribonucleoprotein L
proteoglycan 4-like; Derived by automated computational analysis using gene prediction method: Gnomon.
proteoglycan 4-like, transcript variant X1
proteoglycan 4-like, transcript variant X2
alpha-actinin-4-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: 5 Proteins
alpha-actinin-4; Derived by automated computational analysis using gene prediction method: Gnomon.
galectin-4-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 2 bases in 2 codons; deleted 4 bases in 3 codons
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 2 bases in 2 codons; deleted 4 bases in 3 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
phospholipase D family member 3; Derived by automated computational analysis using gene prediction method: Gnomon.
ryanodine receptor 1; 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 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 14 Proteins
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: ryanodine receptor 1