Procambarus clarkii strain Jiangsu linkage group LG64, ASM2042438v2, whole genome shotgun sequence.
Procambarus clarkii (red swamp crayfish)
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Crustacea; Multicrustacea; Malacostraca; Eumalacostraca; Eucarida; Decapoda; Pleocyemata; Astacidea; Astacoidea; Cambaridae; Procambarus.
A chromosome-level reference genome of red swamp crayfish Procambarus clarkii provides insights into the gene families regarding growth or development in crustaceans
REFSEQ INFORMATION: The reference sequence is identical to\nCM035536.1.\nAssembly name: ASM2042438v2\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Freshwater Fisheries Research\nInstitute of Jiangsu Province, Nanjing 210017, China on 2021/10/12.\nThe original whole-genome shotgun project has the accession\nJAIWQB000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Freshwater Fisheries Research Institute\n of Jiangsu Province, Nanjing 210017,\n China\nAssembly Method :: LACHESIS v. may-2020\nGenome Representation :: Full\nExpected Final Version :: Yes\nGenome Coverage :: 100.0x\nSequencing Technology :: PacBio RS\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI\nAnnotation Status :: Full annotation\nAnnotation Name :: Procambarus clarkii 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.
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: 1 Protein, and 87% coverage of the annotated genomic feature by RNAseq alignments
nuclear pore complex protein Nup160-like, transcript variant X1
COORDINATES: polyA evidence [ECO:0006239]
nuclear pore complex protein Nup160-like, transcript variant X2
nuclear pore complex protein Nup160-like isoform X1
nuclear pore complex protein Nup160-like isoform X2
gastrula zinc finger protein XlCGF52.1-like, transcript variant X1
gastrula zinc finger protein XlCGF52.1-like, transcript variant X2
gastrula zinc finger protein XlCGF52.1-like isoform X1
gastrula zinc finger protein XlCGF52.1-like isoform X2
zinc finger protein 271-like, transcript variant X3
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 25 samples with support for all annotated introns
zinc finger protein 271-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 22 samples with support for all annotated introns
zinc finger protein 271-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 18 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
uncharacterized LOC123771252, transcript variant X3
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 LOC123771252, 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 6 samples with support for all annotated introns
uncharacterized LOC123771252, transcript variant X1
uncharacterized protein LOC123771252 isoform X1
uncharacterized protein LOC123771252 isoform X3
uncharacterized protein LOC123771252 isoform X2
similar to RNA sequence (same species):INSD:GBEV01001393.1
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 248 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 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: added 248 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.
UDP-xylose and UDP-N-acetylglucosamine transporter-like, transcript variant X1
UDP-xylose and UDP-N-acetylglucosamine transporter-like, transcript variant X2
UDP-xylose and UDP-N-acetylglucosamine transporter-like, transcript variant X4
UDP-xylose and UDP-N-acetylglucosamine transporter-like, transcript variant X5
UDP-xylose and UDP-N-acetylglucosamine transporter-like, transcript variant X3
UDP-xylose and UDP-N-acetylglucosamine transporter-like
cysteine-rich PDZ-binding protein-like, transcript variant X3
cysteine-rich PDZ-binding protein-like, transcript variant X2
cysteine-rich PDZ-binding protein-like, transcript variant X1
tRNA-uridine aminocarboxypropyltransferase 1-like
bromodomain adjacent to zinc finger domain protein 1A-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 mRNA, 8 Proteins, and 97% coverage of the annotated genomic feature by RNAseq alignments
zinc finger protein 665-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 82 samples with support for all annotated introns
zinc finger protein 665-like, transcript variant X3
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 16 samples with support for all annotated introns
zinc finger protein 665-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 65 samples with support for all annotated introns
protein HID1-like, transcript variant X2
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 3 samples with support for all annotated introns
protein HID1-like, 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, including 18 samples with support for all annotated introns
F-actin-monooxygenase MICAL3-like, transcript variant X6
F-actin-monooxygenase MICAL3-like, transcript variant X7
F-actin-monooxygenase MICAL3-like, transcript variant X3
F-actin-monooxygenase MICAL3-like, transcript variant X9
F-actin-monooxygenase MICAL3-like, transcript variant X4
F-actin-monooxygenase MICAL3-like, transcript variant X11
F-actin-monooxygenase MICAL3-like, transcript variant X5
F-actin-monooxygenase MICAL3-like, transcript variant X8
F-actin-monooxygenase MICAL3-like, transcript variant X10
F-actin-monooxygenase MICAL3-like, transcript variant X1
F-actin-monooxygenase MICAL3-like, transcript variant X2
F-actin-monooxygenase MICAL3-like isoform X1
F-actin-monooxygenase MICAL3-like isoform X2
F-actin-monooxygenase MICAL3-like isoform X3
F-actin-monooxygenase MICAL3-like isoform X4
F-actin-monooxygenase MICAL3-like isoform X11
F-actin-monooxygenase MICAL3-like isoform X7
F-actin-monooxygenase MICAL3-like isoform X10
F-actin-monooxygenase MICAL3-like isoform X5
F-actin-monooxygenase MICAL3-like isoform X8
F-actin-monooxygenase MICAL3-like isoform X6
F-actin-monooxygenase MICAL3-like isoform X9
zinc finger protein 91-like, transcript variant X1
zinc finger protein 91-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 29 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
serine-aspartate repeat-containing protein F-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
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
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins
hyphally regulated cell wall protein 1-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, and 96% coverage of the annotated genomic feature by RNAseq alignments
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
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 4 Proteins, and 83% 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: fukutin-related protein-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 Proteins
transmembrane protein 245-like, transcript variant X1
transmembrane protein 245-like, transcript variant X3
transmembrane protein 245-like, transcript variant X2
transmembrane protein 245-like, transcript variant X4
transmembrane protein 245-like isoform X2
transmembrane protein 245-like isoform X4
transmembrane protein 245-like isoform X1
transmembrane protein 245-like isoform X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 90% 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
uncharacterized protein DKFZp434B061-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 5 Proteins
uncharacterized LOC123771278, 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 5 samples with support for all annotated introns
uncharacterized LOC123771278, transcript variant X1
uncharacterized protein LOC123771278 isoform X2
uncharacterized protein LOC123771278 isoform X1
probable beta-glucosidase btgE, 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
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
probable beta-glucosidase btgE, transcript variant X1
probable beta-glucosidase btgE, transcript variant X3
uncharacterized LOC123771284, transcript variant X2
uncharacterized LOC123771284, transcript variant X1
uncharacterized protein LOC123771284 isoform X1
uncharacterized protein LOC123771284 isoform X2
translation initiation factor IF-2-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 4 samples with support for all annotated introns
translation initiation factor IF-2-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 5 samples with support for all annotated introns
translation initiation factor IF-2-like isoform X1
uncharacterized protein LOC123771289 isoform 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 40 samples with support for all annotated introns
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 63 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 3 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:12.0:RF00001
uncharacterized LOC123771293, transcript variant X1
uncharacterized LOC123771293, transcript variant X4
uncharacterized LOC123771293, transcript variant X2
uncharacterized LOC123771293, transcript variant X3
uncharacterized protein LOC123771293 isoform X1
uncharacterized protein LOC123771293 isoform 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 5 samples with support for all annotated introns
G-protein coupled receptor Mth2-like, transcript variant X2
similar to RNA sequence (same species):INSD:GARH01026483.1
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 10 samples with support for all annotated introns
G-protein coupled receptor Mth2-like, transcript variant X3
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 535 bases not found in genome assembly; 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 11 samples with support for all annotated introns
G-protein coupled receptor Mth2-like, transcript variant X1
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 535 bases not found in genome assembly; 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 20 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: added 444 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.
G-protein coupled receptor Mth2-like isoform X1
uncharacterized protein LOC123771298 isoform X2
general transcription factor IIF subunit 2-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins
scavenger receptor class F member 1-like
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 9 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 71% 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 92% 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 Proteins, and 76% coverage of the annotated genomic feature by RNAseq alignments
uncharacterized LOC123771301, transcript variant X2
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 11 samples with support for all annotated introns
uncharacterized LOC123771301, transcript variant X1
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 12 samples with support for all annotated introns
uncharacterized protein LOC123771301 isoform X2
uncharacterized protein LOC123771301 isoform X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 98% coverage of the annotated genomic feature by RNAseq alignments, including 8 samples with support for all annotated introns
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein, and 62% coverage of the annotated genomic feature by RNAseq alignments
probable GPI-anchored adhesin-like protein PGA18
serine/arginine repetitive matrix protein 2-like
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
testis-expressed protein 2-like, transcript variant X2
testis-expressed protein 2-like, transcript variant X5
testis-expressed protein 2-like, transcript variant X3
testis-expressed protein 2-like, transcript variant X4
testis-expressed protein 2-like, transcript variant X1
testis-expressed protein 2-like isoform X1
testis-expressed protein 2-like isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins, 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: 2 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: 2 Proteins, 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: 3 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 4 samples with support for all annotated introns
transcriptional repressor scratch 2-like
transient receptor potential cation channel subfamily A member 1 homolog, transcript variant X4
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 14 samples with support for all annotated introns
transient receptor potential cation channel subfamily A member 1 homolog, transcript variant X3
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 16 samples with support for all annotated introns
transient receptor potential cation channel subfamily A member 1 homolog, 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 25 samples with support for all annotated introns
transient receptor potential cation channel subfamily A member 1 homolog, transcript variant X1
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 31 samples with support for all annotated introns
transient receptor potential cation channel subfamily A member 1 homolog isoform X4
transient receptor potential cation channel subfamily A member 1 homolog isoform X3
transient receptor potential cation channel subfamily A member 1 homolog isoform X2
transient receptor potential cation channel subfamily A member 1 homolog isoform X1
intraflagellar transport protein 22 homolog, transcript variant X2
intraflagellar transport protein 22 homolog, transcript variant X3
intraflagellar transport protein 22 homolog, transcript variant X1
intraflagellar transport protein 22 homolog isoform X2
intraflagellar transport protein 22 homolog isoform X3
intraflagellar transport protein 22 homolog isoform X1
aspartate beta-hydroxylase domain-containing protein 2-like
RNA 3'-terminal phosphate cyclase-like protein
glycine N-methyltransferase-like, transcript variant X2
glycine N-methyltransferase-like, transcript variant X3
glycine N-methyltransferase-like, transcript variant X4
glycine N-methyltransferase-like, transcript variant X1
ATP-dependent RNA helicase SUV3 homolog, mitochondrial-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 26 Proteins, and 100% coverage of the annotated genomic feature by RNAseq alignments, including 89 samples with support for all annotated introns
COORDINATES: nucleotide motif:Rfam:12.0:RF00007
uncharacterized LOC123771323, transcript variant X6
uncharacterized LOC123771323, transcript variant X1
uncharacterized LOC123771323, transcript variant X3
uncharacterized protein LOC123771323 isoform X1
uncharacterized protein LOC123771323 isoform X3
uncharacterized protein LOC123771323 isoform X6
uncharacterized LOC123771323, transcript variant X2
uncharacterized protein LOC123771323 isoform X2
uncharacterized LOC123771323, transcript variant X5
uncharacterized LOC123771323, transcript variant X4
uncharacterized protein LOC123771323 isoform X4
uncharacterized protein LOC123771323 isoform X5
39S ribosomal protein L41, mitochondrial-like
serine/threonine-protein kinase fused-like, 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 6 samples with support for all annotated introns
serine/threonine-protein kinase fused-like, transcript variant X3
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 4 samples with support for all annotated introns
serine/threonine-protein kinase fused-like, transcript variant X1
serine/threonine-protein kinase fused-like
uncharacterized threonine-rich GPI-anchored glycoprotein PJ4664.02-like
postacrosomal sheath WW domain-binding protein-like
repetitive proline-rich cell wall protein 2-like
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins, and 91% coverage of the annotated genomic feature by RNAseq alignments
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 60% coverage of the annotated genomic feature by RNAseq alignments
guanine nucleotide-binding protein subunit gamma 4-like
transcription initiation factor TFIID subunit 1-like
small conductance calcium-activated potassium channel protein-like
similar to RNA sequence (same species):INSD:GBEV01035846.1
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: added 342 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 99% 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: added 342 bases not found in genome assembly; Derived by automated computational analysis using gene prediction method: Gnomon.