Oncorhynchus gorbuscha isolate QuinsamMale2020 ecotype Even-year linkage group LGY, OgorEven_v1.0, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Protacanthopterygii; Salmoniformes; Salmonidae; Salmoninae; Oncorhynchus.
The pink salmon genome: Uncovering the genomic consequences of a two-year life cycle
REFSEQ INFORMATION: The reference sequence is identical to\nCM037748.1.\nAssembly name: OgorEven_v1.0\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Fisheries and Oceans Canada\non 2021/12/15. The original whole-genome shotgun project has the\naccession JAGYUW000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Fisheries and Oceans Canada\nAssembly Date :: 2021\nAssembly Method :: Flye v. 2.8.2-b1695; Racon v. 1.4.16;\n Pilon v. 1.24; Salsa2 v. April-2021;\n Chromonomer v. 1.10; Ragtag v. 1.0.1;\n Custom v. April-2021; Juicebox v. 1.11.08\nAssembly Name :: OgorEven_v1.0\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 44.0x\nSequencing Technology :: Oxford Nanopore MinION; MGI; Illumina\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Oncorhynchus gorbuscha 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.
COORDINATES: polyA evidence [ECO:0006239]
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA leucine (anticodon AAG); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA serine (anticodon UGA); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA leucine (anticodon CAG); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:12.0:RF00001
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 10 samples with support for all annotated introns
solute carrier family 12 member 2-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 1 EST, 76 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 7 samples with support for all annotated introns
solute carrier family 12 member 2-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 1 EST, 22 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
solute carrier family 12 member 2-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 1 EST, 58 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
solute carrier family 12 member 2-like isoform X1
solute carrier family 12 member 2-like isoform X3
solute carrier family 12 member 2-like isoform X2
F-box/WD repeat-containing protein 2-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 ESTs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
F-box/WD repeat-containing protein 2-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 ESTs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 16 samples with support for all annotated introns
F-box/WD repeat-containing protein 2-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 ESTs, 6 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 19 samples with support for all annotated introns
F-box/WD repeat-containing protein 2-like isoform X1
F-box/WD repeat-containing protein 2-like isoform X2
interleukin-6 receptor subunit beta-like
pro-neuregulin-1, membrane-bound isoform-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 1 Protein, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
pro-neuregulin-1, membrane-bound isoform-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 EST, 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 6 samples with support for all annotated introns
pro-neuregulin-1, membrane-bound isoform-like, transcript variant X3
pro-neuregulin-1, membrane-bound isoform-like isoform X2
pro-neuregulin-1, membrane-bound isoform-like isoform X1
pro-neuregulin-1, membrane-bound isoform-like isoform X3
purine-rich element-binding protein gamma-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 ESTs, 8 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments
serine/threonine-protein phosphatase 2A catalytic subunit beta isoform
zinc finger and BTB domain-containing protein 43-like
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 9 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins, and 94% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
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
immediate early response gene 5-like protein
uncharacterized LOC124016657, transcript variant X1
uncharacterized LOC124016657, 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 12 samples with support for all annotated introns
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 4 samples with support for all annotated introns
LIM domain transcription factor LMO4-B-like
uncharacterized LOC124016665, transcript variant X2
uncharacterized LOC124016665, 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 3 samples with support for all annotated introns
actin-related protein 2/3 complex subunit 5-like protein
similar to RNA sequence (same species):INSD:GFUW01008166.1
annotated by transcript or proteomic data
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 8 bases not found in genome assembly
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 Proteins, and 88% coverage of the annotated genomic feature by RNAseq alignments
serine/threonine-protein phosphatase 6 catalytic subunit
uncharacterized protein LOC796870 homolog
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 2 samples with support for all annotated introns
uncharacterized protein si:dkey-220k22.3
glutathione S-transferase theta-3-like, transcript variant X1
glutathione S-transferase theta-3-like, transcript variant X2
glutathione S-transferase theta-3-like isoform X1
glutathione S-transferase theta-1-like isoform X2
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
TBC1 domain family member 13-like, transcript variant X2
TBC1 domain family member 13-like, transcript variant X1
uncharacterized LOC124016643, transcript variant X1
uncharacterized LOC124016643, transcript variant X2
ral guanine nucleotide dissociation stimulator-like, transcript variant X1
ral guanine nucleotide dissociation stimulator-like, transcript variant X3
ral guanine nucleotide dissociation stimulator-like, transcript variant X2
ral guanine nucleotide dissociation stimulator-like isoform X1
ral guanine nucleotide dissociation stimulator-like isoform X3
ral guanine nucleotide dissociation stimulator-like isoform X2
ral guanine nucleotide dissociation stimulator-like, transcript variant X4
ral guanine nucleotide dissociation stimulator-like, transcript variant X5
ral guanine nucleotide dissociation stimulator-like isoform X4
ral guanine nucleotide dissociation stimulator-like isoform X5
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 15% 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 100% coverage of the annotated genomic feature by RNAseq alignments, including 6 samples with support for all annotated introns
spectrin alpha chain, non-erythrocytic 1-like
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
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: spectrin alpha chain, non-erythrocytic 1-like
outer dense fiber protein 2-like, transcript variant X5
outer dense fiber protein 2-like, transcript variant X1
outer dense fiber protein 2-like, transcript variant X3
outer dense fiber protein 2-like, transcript variant X4
outer dense fiber protein 2-like, transcript variant X2
outer dense fiber protein 2-like isoform X3
outer dense fiber protein 2-like isoform X1
outer dense fiber protein 2-like isoform X2
zinc finger DHHC-type palmitoyltransferase 12b
calcium-binding mitochondrial carrier protein SCaMC-2-B-like, transcript variant X1
calcium-binding mitochondrial carrier protein SCaMC-2-B-like, transcript variant X2
calcium-binding mitochondrial carrier protein SCaMC-2-B-like, transcript variant X3
calcium-binding mitochondrial carrier protein SCaMC-2-like isoform X1
calcium-binding mitochondrial carrier protein SCaMC-2-B-like isoform X2
calcium-binding mitochondrial carrier protein SCaMC-2-B-like isoform X3
nuclear apoptosis-inducing factor 1-like
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
dolichol phosphate-mannose biosynthesis regulatory protein-like
phosphatidylinositol 4-phosphate 5-kinase-like protein 1, transcript variant X1
phosphatidylinositol 4-phosphate 5-kinase-like protein 1, transcript variant X2
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 4 samples with support for all annotated introns
phosphatidylinositol 4-phosphate 5-kinase-like protein 1 isoform X1
phosphatidylinositol 4-phosphate 5-kinase-like protein 1 isoform X2
nucleoporin NUP188-like, transcript variant X5
nucleoporin NUP188-like, transcript variant X6
nucleoporin NUP188-like, transcript variant X3
nucleoporin NUP188-like, transcript variant X2
nucleoporin NUP188-like, transcript variant X1
nucleoporin NUP188-like, transcript variant X4
volume-regulated anion channel subunit LRRC8A-like, 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 7 samples with support for all annotated introns
volume-regulated anion channel subunit LRRC8A-like isoform X2
volume-regulated anion channel subunit LRRC8A-like, transcript variant X1
volume-regulated anion channel subunit LRRC8A-like isoform X1
rap guanine nucleotide exchange factor 1-like, transcript variant X2
rap guanine nucleotide exchange factor 1-like, transcript variant X1
rap guanine nucleotide exchange factor 1-like, transcript variant X3
rap guanine nucleotide exchange factor 1-like, transcript variant X5
rap guanine nucleotide exchange factor 1-like, transcript variant X6
rap guanine nucleotide exchange factor 1-like, transcript variant X7
rap guanine nucleotide exchange factor 1-like, transcript variant X4
rap guanine nucleotide exchange factor 1-like isoform X7
rap guanine nucleotide exchange factor 1-like isoform X3
rap guanine nucleotide exchange factor 1-like isoform X6
rap guanine nucleotide exchange factor 1-like isoform X5
rap guanine nucleotide exchange factor 1-like isoform X2
rap guanine nucleotide exchange factor 1-like isoform X1
rap guanine nucleotide exchange factor 1-like isoform X4
transfer RNA alanine (anticodon UGC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA glycine (anticodon GCC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA aspartic acid (anticodon GUC); Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
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 18 samples with support for all annotated introns