Rhincodon typus isolate 14 chromosome 49, sRhiTyp1.1, whole genome shotgun sequence.
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Chondrichthyes; Elasmobranchii; Galeomorphii; Galeoidea; Orectolobiformes; Rhincodontidae; Rhincodon.
REFSEQ INFORMATION: The reference sequence is identical to\nCM038846.1.\nAssembly name: sRhiTyp1.1\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Squalomix on 2022/02/03. The\noriginal whole-genome shotgun project has the accession\nJAHMAH000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Squalomix\nAssembly Date :: 22-FEB-2021\nAssembly Method :: Supernova v. 2.1.1; P_RNA_scaffolder v.\n commit 7941e0f; Tigmint v. 1.1.2; ARKS v.\n 1.1.0; 3D-DNA v. 180922\nAssembly Name :: sRhiTyp1.1\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 46.7x\nSequencing Technology :: Illumina HiSeq\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Rhincodon typus Annotation Release\n 101\nAnnotation Version :: 101\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.
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
ubiquitin carboxyl-terminal hydrolase 5-like
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: 73 long SRA reads, 1 Protein, and 86% 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; substituted 2 bases at 2 genomic stop codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: ubiquitin carboxyl-terminal hydrolase 5-like
cell division cycle associated 3, transcript variant X1
COORDINATES: polyA evidence [ECO:0006239]
cell division cycle associated 3, transcript variant X2
cell division cycle-associated protein 3 isoform X1
cell division cycle-associated protein 3 isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
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: 5 long SRA reads, and 79% 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: 100% coverage of the annotated genomic feature by RNAseq alignments, including 10 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
MYC binding protein, transcript variant X1
MYC binding protein, transcript variant X2
NACHT, LRR and PYD domains-containing protein 3-like, transcript variant X1
NACHT, LRR and PYD domains-containing protein 3-like, transcript variant X3
NACHT, LRR and PYD domains-containing protein 3-like, transcript variant X2
NACHT, LRR and PYD domains-containing protein 3-like isoform X1
NACHT, LRR and PYD domains-containing protein 3-like isoform X2
NACHT, LRR and PYD domains-containing protein 3-like isoform X3
NACHT, LRR and PYD domains-containing protein 3-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 15 long SRA reads, and 88% 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 long SRA read, and 96% 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: 96% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
cardiotrophin-1-like, 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 3 samples with support for all annotated introns
cardiotrophin-1-like, 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 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 2 samples with support for all annotated introns
NACHT, LRR and PYD domains-containing protein 3-like, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 long SRA read, and 95% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
nuclear factor of activated T cells 2 interacting protein, transcript variant X2
nuclear factor of activated T cells 2 interacting protein, transcript variant X7
nuclear factor of activated T cells 2 interacting protein, transcript variant X4
nuclear factor of activated T cells 2 interacting protein, transcript variant X3
nuclear factor of activated T cells 2 interacting protein, transcript variant X5
nuclear factor of activated T cells 2 interacting protein, transcript variant X6
nuclear factor of activated T cells 2 interacting protein, transcript variant X1
gastrula zinc finger protein XlCGF7.1-like, transcript variant X2
gastrula zinc finger protein XlCGF7.1-like, transcript variant X1
gastrula zinc finger protein XlCGF7.1-like, transcript variant X4
gastrula zinc finger protein XlCGF7.1-like, transcript variant X3
gastrula zinc finger protein XlCGF7.1-like
uncharacterized LOC125488102, transcript variant X2
uncharacterized LOC125488102, 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
gastrula zinc finger protein XlCGF57.1-like, transcript variant X2
gastrula zinc finger protein XlCGF26.1-like
oocyte zinc finger protein XlCOF6-like isoform X2
gastrula zinc finger protein XlCGF57.1-like, transcript variant X1
gastrula zinc finger protein XlCGF57.1-like isoform X1
Derived by automated computational analysis using gene prediction method: tRNAscan-SE.
transfer RNA threonine (anticodon UGU); 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: 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 3 samples with support for all annotated introns
probable G-protein coupled receptor 139, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 long SRA read, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 1 sample with support for all annotated introns
probable G-protein coupled receptor 139, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 long SRA reads, 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: 17 Proteins, and 17% coverage of the annotated genomic feature by RNAseq alignments
pseudouridylate synthase RPUSD4, mitochondrial-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 33 long SRA reads, 19 Proteins, and 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: 2 long SRA reads, 13 Proteins, and 94% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 9 long SRA reads, 87 Proteins, and 92% 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: substituted 1 base at 1 genomic stop codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: mitogen-activated protein kinase 7
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 long SRA reads, 4 Proteins, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 11 samples with support for all annotated introns
autism susceptibility gene 2 protein homolog
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: 1 long SRA read, 3 Proteins, and 94% 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: autism susceptibility gene 2 protein homolog
phosphorylase b kinase gamma catalytic chain, liver/testis isoform-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 99% coverage of the annotated genomic feature by RNAseq alignments, including 7 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 25 long SRA reads, 16 Proteins, and 94% coverage of the annotated genomic feature by RNAseq alignments
3-methyl-2-oxobutanoate dehydrogenase [lipoamide] kinase, mitochondrial-like
serine/arginine repetitive matrix protein 2
serine/arginine repetitive matrix protein 2-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 long SRA reads, 4 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 10 samples with support for all annotated introns
serine/arginine repetitive matrix protein 2-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 long SRA reads, 4 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 17 samples with support for all annotated introns
serine/arginine repetitive matrix protein 2-like
membrane magnesium transporter 1, transcript variant X2
membrane magnesium transporter 1, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins, and 88% 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 88% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 93% 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 long SRA reads, 13 Proteins, and 86% coverage of the annotated genomic feature by RNAseq alignments
CDP-diacylglycerol--inositol 3-phosphatidyltransferase (phosphatidylinositol synthase)
CDP-diacylglycerol--inositol 3-phosphatidyltransferase
uncharacterized protein LOC558894 homolog
uncharacterized protein si:ch211-214j24.10
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 long SRA reads, 24 Proteins, and 89% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
PAXIP1 associated glutamate-rich protein 1, transcript variant X4
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 15 long SRA reads, and 96% coverage of the annotated genomic feature by RNAseq alignments, including 19 samples with support for all annotated introns
PAXIP1 associated glutamate-rich protein 1, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 8 long SRA reads, and 97% coverage of the annotated genomic feature by RNAseq alignments, including 9 samples with support for all annotated introns
PAXIP1 associated glutamate-rich protein 1, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 long SRA reads, and 98% coverage of the annotated genomic feature by RNAseq alignments, including 6 samples with support for all annotated introns
PAXIP1 associated glutamate-rich protein 1, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 13 long SRA reads, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 19 samples with support for all annotated introns
PAXIP1-associated glutamate-rich protein 1
protein phosphatase 4, catalytic subunit b
serine/threonine-protein phosphatase 4 catalytic subunit B
serine/threonine-protein kinase TAO2-like, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 20 long SRA reads, 33 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
serine/threonine-protein kinase TAO2-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 20 long SRA reads, 33 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 11 samples with support for all annotated introns
serine/threonine-protein kinase TAO2-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 20 long SRA reads, 5 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 5 samples with support for all annotated introns
serine/threonine-protein kinase TAO2-like isoform X1
serine/threonine-protein kinase TAO2-like isoform X2
dynein assembly factor with WDR repeat domains 1-like