Corvus hawaiiensis isolate bCorHaw1 chromosome 32, bCorHaw1.pri.cur, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Passeriformes; Corvoidea; Corvidae; Corvus.
REFSEQ INFORMATION: The reference sequence is identical to\nCM036377.1.\nAssembly name: bCorHaw1.pri.cur\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Vertebrate Genomes Project on\n2021/11/04. The original whole-genome shotgun project has the\naccession JAJGSY000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Vertebrate Genomes Project\nAssembly Date :: 20-SEP-2021\nAssembly Method :: HiFiasm v. 0.15.4+galaxy; purge_dups v.\n 1.2.5+galaxy3; Bionano Solve v.\n 3.6.1+galaxy2; Salsa v. 2.3+galaxy0;\n gEVAL manual curation v. 2021-09-20; VGP\n pipeline v. 2.0\nAssembly Name :: bCorHaw1.pri.cur\nDiploid :: Principal Pseudohaplotype\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 29.61x\nSequencing Technology :: PacBio Sequel II HiFi; Illumina NovaSeq;\n Bionano Genomics Saphyr DLS; Arima\n Genomics Hi-C v2\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Corvus hawaiiensis Annotation\n Release 100\nAnnotation Version :: 100\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.
uncharacterized LOC125318941, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments
uncharacterized LOC125318941, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
uncharacterized LOC125318940, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
uncharacterized LOC125318940, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 100% coverage of the annotated genomic feature by RNAseq alignments, including 15 samples with support for all annotated introns
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, transcript variant X1
COORDINATES: polyA evidence [ECO:0006239]
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, transcript variant X5
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, transcript variant X2
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, transcript variant X3
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4, transcript variant X4
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: low-density lipoprotein receptor-like
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 4 bases in 4 codons
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 4 bases in 4 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: far upstream element-binding protein 2
general transcription factor IIF subunit 1
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 2 bases in 1 codon
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: general transcription factor IIF subunit 1
alpha-ketoglutarate-dependent dioxygenase alkB homolog 7, mitochondrial
caseinolytic mitochondrial matrix peptidase proteolytic subunit
ATP-dependent Clp protease proteolytic subunit, mitochondrial
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 10 samples with support for all annotated introns
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: 8 Proteins, and 97% coverage of the annotated genomic feature by RNAseq alignments, including 63 samples with support for all annotated introns
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: DDB1- and CUL4-associated factor 15
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 57 samples with support for all annotated introns
coiled-coil and C2 domain-containing protein 1A
break repair meiotic recombinase recruitment factor 1
leydig cell tumor 10 kDa protein homolog
mRNA decay activator protein ZFP36L3-like
methylthioribose-1-phosphate isomerase 1, transcript variant X2
methylthioribose-1-phosphate isomerase 1, transcript variant X1
methylthioribose-1-phosphate isomerase isoform X2
methylthioribose-1-phosphate isomerase isoform X1
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 93% coverage of the annotated genomic feature by RNAseq alignments
LOW QUALITY PROTEIN: probable splicing factor YJU2B
calcium voltage-gated channel subunit alpha1 A
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 7 bases in 5 codons; deleted 6 bases in 6 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 93% coverage of the annotated genomic feature by RNAseq alignments, including 26 samples with support for all annotated introns
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 7 bases in 5 codons; deleted 6 bases in 6 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: voltage-dependent P/Q-type calcium channel subunit alpha-1A
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: nucleus accumbens-associated protein 1
tRNA methyltransferase 1, transcript variant X4
tRNA methyltransferase 1, transcript variant X3
tRNA methyltransferase 1, transcript variant X2
tRNA methyltransferase 1, transcript variant X1
tRNA (guanine(26)-N(2))-dimethyltransferase isoform X1
tRNA (guanine(26)-N(2))-dimethyltransferase isoform X2
tRNA (guanine(26)-N(2))-dimethyltransferase isoform X3
mannosidase alpha class 2B member 1, transcript variant X2
mannosidase alpha class 2B member 1, transcript variant X1
F-box and WD repeat domain containing 9, transcript variant X4
F-box and WD repeat domain containing 9, transcript variant X3
F-box and WD repeat domain containing 9, transcript variant X1
F-box and WD repeat domain containing 9, transcript variant X2
F-box/WD repeat-containing protein 9 isoform X2
F-box/WD repeat-containing protein 9 isoform X4
F-box/WD repeat-containing protein 9 isoform X3
F-box/WD repeat-containing protein 9 isoform X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 16 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 64 samples with support for all annotated introns
telomerase RNA component interacting RNase
guided entry of tail-anchored proteins factor 3, ATPase
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 28 Proteins, and 96% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
translocase of inner mitochondrial membrane 29
mitochondrial import inner membrane translocase subunit Tim29
SPC24 component of NDC80 kinetochore complex
autophagy related 4D cysteine peptidase, transcript variant X1
autophagy related 4D cysteine peptidase, transcript variant X4
autophagy related 4D cysteine peptidase, transcript variant X2
autophagy related 4D cysteine peptidase, transcript variant X3
autophagy related 4D cysteine peptidase, transcript variant X5
adaptor related protein complex 1 subunit mu 2
solute carrier family 44 member 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 63 samples with support for all annotated introns
solute carrier family 44 member 2, transcript variant X2
choline transporter-like protein 2 isoform X2
choline transporter-like protein 2 isoform X1
solute carrier family 44 member 2, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 22 samples with support for all annotated introns
solute carrier family 44 member 2, transcript variant X3
choline transporter-like protein 2 isoform X3
choline transporter-like protein 2 isoform X4
interleukin enhancer binding factor 3, transcript variant X2
interleukin enhancer binding factor 3, transcript variant X1
interleukin enhancer binding factor 3, transcript variant X4
interleukin enhancer binding factor 3, transcript variant X3
interleukin enhancer binding factor 3, transcript variant X5
interleukin enhancer binding factor 3, transcript variant X6
interleukin enhancer binding factor 3, transcript variant X7
interleukin enhancer-binding factor 3 isoform X1
interleukin enhancer-binding factor 3 isoform X3
interleukin enhancer-binding factor 3 isoform X2
interleukin enhancer-binding factor 3 isoform X4
interleukin enhancer-binding factor 3 isoform X5
interleukin enhancer-binding factor 3 isoform X6
beta-1,3-galactosyltransferase 2-like, transcript variant X1
beta-1,3-galactosyltransferase 2-like, transcript variant X2
queuine tRNA-ribosyltransferase catalytic subunit 1
coactivator associated arginine methyltransferase 1
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; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 97% coverage of the annotated genomic feature by RNAseq alignments, including 67 samples with support for all annotated introns
LOW QUALITY PROTEIN: histone-arginine methyltransferase CARM1
Yip1 domain family member 2, transcript variant X2
Yip1 domain family member 2, transcript variant X3
Yip1 domain family member 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 34 Proteins, and 98% coverage of the annotated genomic feature by RNAseq alignments
cAMP-specific 3',5'-cyclic phosphodiesterase 4A
ELAV like RNA binding protein 3, transcript variant X2
ELAV like RNA binding protein 3, transcript variant X1
evolutionarily conserved signaling intermediate in Toll pathway, mitochondrial
transcription elongation factor 1 homolog
tartrate-resistant acid phosphatase type 5
nuclear factor I X, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments
nuclear factor I X, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 38 samples with support for all annotated introns
nuclear factor I X, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 59 samples with support for all annotated introns
nuclear factor I X, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 41 samples with support for all annotated introns
growth arrest and DNA damage-inducible proteins-interacting protein 1
RAD23 homolog A, nucleotide excision repair protein
UV excision repair protein RAD23 homolog A
phenylalanyl-tRNA synthetase subunit alpha
phenylalanine--tRNA ligase alpha subunit
synaptonemal complex central element protein 2, transcript variant X2
synaptonemal complex central element protein 2 isoform X2
synaptonemal complex central element protein 2, transcript variant X1
synaptonemal complex central element protein 2 isoform X1
glutaryl-CoA dehydrogenase, transcript variant X2
glutaryl-CoA dehydrogenase, transcript variant X1
glutaryl-CoA dehydrogenase, mitochondrial
microtubule associated serine/threonine kinase 1, transcript variant X2
microtubule associated serine/threonine kinase 1, transcript variant X3
microtubule associated serine/threonine kinase 1, transcript variant X1
microtubule associated serine/threonine kinase 1, transcript variant X4
microtubule-associated serine/threonine-protein kinase 1 isoform X2
microtubule-associated serine/threonine-protein kinase 1 isoform X3
microtubule-associated serine/threonine-protein kinase 1 isoform X1
microtubule-associated serine/threonine-protein kinase 1 isoform X4
LOW QUALITY PROTEIN: ribonuclease H2 subunit A
LOW QUALITY PROTEIN: protein Hook homolog 2
cell division cycle 37, HSP90 cochaperone
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 3 bases in 3 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 15 Proteins, and 94% coverage of the annotated genomic feature by RNAseq alignments, including 54 samples with support for all annotated introns
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 3 bases in 3 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: non-receptor tyrosine-protein kinase TYK2
ribonucleoprotein, PTB binding 1, transcript variant X1
ribonucleoprotein, PTB binding 1, transcript variant X2
ribonucleoprotein PTB-binding 1 isoform X1
ribonucleoprotein PTB-binding 1 isoform X2
intercellular adhesion molecule 5-like, transcript variant X3
intercellular adhesion molecule 5-like, transcript variant X1
intercellular adhesion molecule 5-like, transcript variant X2
sphingosine-1-phosphate receptor 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 35 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 47 samples with support for all annotated introns
sphingosine 1-phosphate receptor 2 isoform X1
sphingosine-1-phosphate receptor 2, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 35 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 41 samples with support for all annotated introns
sphingosine 1-phosphate receptor 2 isoform X2
basic salivary proline-rich protein 2-like, transcript variant X2
basic salivary proline-rich protein 2-like, transcript variant X1
basic salivary proline-rich protein 2-like isoform X1
patatin like phospholipase domain containing 6, transcript variant X1
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 X4
patatin-like phospholipase domain-containing protein 6 isoform X1
patatin-like phospholipase domain-containing protein 6 isoform X3
patatin-like phospholipase domain-containing protein 6 isoform X2
patatin-like phospholipase domain-containing protein 6 isoform X4
multivesicular body subunit 12A, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 97% coverage of the annotated genomic feature by RNAseq alignments, including 14 samples with support for all annotated introns
multivesicular body subunit 12A, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 96% coverage of the annotated genomic feature by RNAseq alignments, including 30 samples with support for all annotated introns
multivesicular body subunit 12A isoform X1
multivesicular body subunit 12A isoform X3
multivesicular body subunit 12A, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 98% coverage of the annotated genomic feature by RNAseq alignments, including 7 samples with support for all annotated introns
multivesicular body subunit 12A isoform X2
LOW QUALITY PROTEIN: endoplasmic reticulum transmembrane helix translocase
coiled-coil-helix-coiled-coil-helix domain containing 5
coiled-coil-helix-coiled-coil-helix domain-containing protein 5
LIM homeobox transcription factor 1-alpha-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 73% coverage of the annotated genomic feature by RNAseq alignments