Ochotona princeps isolate UAM:Mamm:113957 chromosome 13A, OchPri4.0, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Lagomorpha; Ochotonidae; Ochotona.
REFSEQ INFORMATION: The reference sequence is identical to\nCM025744.1.\nAssembly name: OchPri4.0\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the University of British\nColumbia Okanagan on 2020/09/21. The original whole-genome shotgun\nproject has the accession JACJUE000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: University of British Columbia\n Okanagan\nAssembly Method :: Dovetail HiRise v. 2017\nAssembly Name :: OchPri4.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nReference-guided Assembly :: GCA_000292845.1\nGenome Coverage :: 23.68x\nSequencing Technology :: Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Ochotona princeps Annotation Release\n 102\nAnnotation Version :: 102\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 8.5\nAnnotation Method :: Best-placed RefSeq; Gnomon\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\n##Genome-Annotation-Data-END##
USA: Beaverhead-Deerlodge National Forest, Montana
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: 19 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 14 Proteins
poly(A) binding protein interacting protein 1
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: 8 Proteins, and 56% 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: deleted 1 base in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: polyadenylate-binding protein-interacting protein 1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 20 Proteins, and 48% coverage of the annotated genomic feature by RNAseq alignments
dipeptidyl aminopeptidase-like protein 6
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 43% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 mRNAs, 6 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins, and 90% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 3 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 2 Proteins, and 23% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 8 Proteins
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 2 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 22 Proteins
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:12.0:RF00004
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 Proteins, and 95% coverage of the annotated genomic feature by RNAseq alignments
limb development membrane protein 1, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, 7 Proteins, and 68% coverage of the annotated genomic feature by RNAseq alignments
limb development membrane protein 1, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 6 Proteins, and 23% coverage of the annotated genomic feature by RNAseq alignments
limb region 1 protein homolog isoform X2
limb region 1 protein homolog isoform X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 20% coverage of the annotated genomic feature by RNAseq alignments
nucleolar MIF4G domain-containing protein 1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins
motor neuron and pancreas homeobox protein 1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 mRNAs, 4 Proteins, and 10% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, 4 Proteins, and 42% coverage of the annotated genomic feature by RNAseq alignments
COORDINATES: nucleotide motif:Rfam:12.0:RF00428
COORDINATES: nucleotide motif:Rfam:12.0:RF00003
protein tyrosine phosphatase receptor type N2
receptor-type tyrosine-protein phosphatase N2
COORDINATES: nucleotide motif:Rfam:12.0:RF00591
DnaJ heat shock protein family (Hsp40) member B6, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 7 Proteins, and 78% coverage of the annotated genomic feature by RNAseq alignments
dnaJ homolog subfamily B member 6 isoform X1
DnaJ heat shock protein family (Hsp40) member B6, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
DnaJ heat shock protein family (Hsp40) member B6, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 mRNAs, 10 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
dnaJ homolog subfamily B member 6 isoform X4
dnaJ homolog subfamily B member 6 isoform X3
DnaJ heat shock protein family (Hsp40) member B6, transcript variant X2
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 1 sample with support for all annotated introns
dnaJ homolog subfamily B member 6 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, 1 Protein, and 60% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins
vesicle associated membrane protein 4, 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 2 samples with support for all annotated introns
vesicle associated membrane protein 4, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, and 93% coverage of the annotated genomic feature by RNAseq alignments
vesicle associated membrane protein 4, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 94% coverage of the annotated genomic feature by RNAseq alignments
vesicle-associated membrane protein 4 isoform X4
vesicle-associated membrane protein 4 isoform X2
vesicle-associated membrane protein 4 isoform X3
vesicle associated membrane protein 4, 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 1 sample with support for all annotated introns
vesicle-associated membrane protein 4 isoform X1
eEF1A lysine and N-terminal methyltransferase, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 14 mRNAs, 6 Proteins
eEF1A lysine and N-terminal methyltransferase, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 1 Protein
eEF1A lysine and N-terminal methyltransferase isoform X1
eEF1A lysine and N-terminal methyltransferase isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 5 Proteins, and 30% coverage of the annotated genomic feature by RNAseq alignments
phosphatidylinositol glycan anchor biosynthesis class C
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 7 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
phosphatidylinositol N-acetylglucosaminyltransferase subunit C
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
uncharacterized protein C1orf105 homolog
SUN domain containing ossification factor
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 49% coverage of the annotated genomic feature by RNAseq alignments
SUN domain-containing ossification factor
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 13 Proteins
tumor necrosis factor ligand superfamily member 6
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 Proteins
tumor necrosis factor ligand superfamily member 18
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 5 Proteins
tumor necrosis factor ligand superfamily member 4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 mRNAs, 10 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
solute carrier family 9 member C2 (putative)
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 59% 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 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
ankyrin repeat domain-containing protein 45
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 88% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 mRNAs, 7 Proteins
aspartyl-tRNA synthetase 2, mitochondrial
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
COORDINATES: nucleotide motif:Rfam:12.0:RF00136
COORDINATES: nucleotide motif:Rfam:12.0:RF00281
small nucleolar RNA snR60/Z15/Z230/Z193/J17
COORDINATES: nucleotide motif:Rfam:12.0:RF00309
COORDINATES: nucleotide motif:Rfam:12.0:RF00152
COORDINATES: nucleotide motif:Rfam:12.0:RF00592
COORDINATES: nucleotide motif:Rfam:12.0:RF00287
COORDINATES: nucleotide motif:Rfam:12.0:RF00069
COORDINATES: nucleotide motif:Rfam:12.0:RF00612
COORDINATES: nucleotide motif:Rfam:12.0:RF00284
zinc finger and BTB domain containing 37
zinc finger and BTB domain-containing protein 37
serpin family C member 1, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 47% coverage of the annotated genomic feature by RNAseq alignments
serpin family C member 1, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 41% coverage of the annotated genomic feature by RNAseq alignments
serpin family C member 1, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 42% coverage of the annotated genomic feature by RNAseq alignments
serpin family C member 1, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 13 Proteins, and 40% coverage of the annotated genomic feature by RNAseq alignments
ring finger and CCCH-type domains 1, transcript variant X2
ring finger and CCCH-type domains 1, transcript variant X1
rab GTPase-activating protein 1-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 2 Proteins, and 98% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
rab GTPase-activating protein 1-like isoform X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 mRNAs, 8 Proteins
COORDINATES: nucleotide motif:Rfam:12.0:RF00026
rab GTPase-activating protein 1-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
rab GTPase-activating protein 1-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
uncharacterized protein LOC105942406 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 2 samples with support for all annotated introns
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 2 samples with support for all annotated introns
28S ribosomal protein S14, mitochondrial
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
uncharacterized protein KIAA0040 homolog
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 Proteins, and 7% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 9% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 7 Proteins, and 78% coverage of the annotated genomic feature by RNAseq alignments
COORDINATES: nucleotide motif:Rfam:12.0:RF00565
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 17 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 12 mRNAs, 7 Proteins
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: substituted 2 bases at 2 genomic stop codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: E3 ubiquitin-protein ligase TRAIP-like
BMP/retinoic acid inducible neural specific 2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 11 Proteins, and 40% coverage of the annotated genomic feature by RNAseq alignments
BMP/retinoic acid-inducible neural-specific protein 2
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: protein transport protein Sec16B
RAS protein activator like 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, 9 Proteins, and 23% coverage of the annotated genomic feature by RNAseq alignments
ras GTPase-activating protein nGAP isoform X1
RAS protein activator like 2, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 2 Proteins, and 24% coverage of the annotated genomic feature by RNAseq alignments
ras GTPase-activating protein nGAP isoform X2
testis expressed 35, transcript variant X1
testis expressed 35, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 78% coverage of the annotated genomic feature by RNAseq alignments
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: 4 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: cytoskeleton-associated protein 2
Ral GEF with PH domain and SH3 binding motif 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 19 Proteins, and 43% coverage of the annotated genomic feature by RNAseq alignments
Ral GEF with PH domain and SH3 binding motif 2, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 12 Proteins, and 46% coverage of the annotated genomic feature by RNAseq alignments
ras-specific guanine nucleotide-releasing factor RalGPS2 isoform X1
ras-specific guanine nucleotide-releasing factor RalGPS2 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 7 Proteins, and 64% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 5 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 39% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 mRNAs, 3 Proteins, and 63% coverage of the annotated genomic feature by RNAseq alignments
axonemal dynein light chain domain containing 1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 17% coverage of the annotated genomic feature by RNAseq alignments
axonemal dynein light chain domain-containing protein 1
NPHS2 stomatin family member, podocin, transcript variant X2
NPHS2 stomatin family member, podocin, transcript variant X1
family with sequence similarity 163 member A
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 27% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins, and 11% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 mRNAs, 11 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 mRNAs, 6 Proteins
acyl-CoA-binding domain-containing protein 6
xenotropic and polytropic retrovirus receptor 1, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 mRNAs, 29 Proteins, and 41% coverage of the annotated genomic feature by RNAseq alignments
xenotropic and polytropic retrovirus receptor 1, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 1 Protein, and 39% coverage of the annotated genomic feature by RNAseq alignments
xenotropic and polytropic retrovirus receptor 1 isoform X1
xenotropic and polytropic retrovirus receptor 1 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 Proteins
vasoactive intestinal peptide receptor 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 mRNAs, 11 Proteins
vasoactive intestinal peptide receptor 2, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 2 Proteins
vasoactive intestinal polypeptide receptor 2 isoform X1
vasoactive intestinal polypeptide receptor 2 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins, and 18% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 mRNAs, 2 Proteins, and 4% coverage of the annotated genomic feature by RNAseq alignments