Rissa tridactyla isolate bRisTri1 chromosome 29, bRisTri1.patW.cur.20221130, whole genome shotgun sequence.
Rissa tridactyla (black-legged kittiwake)
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Dinosauria; Saurischia; Theropoda; Coelurosauria; Aves; Neognathae; Charadriiformes; Laridae; Rissa.
REFSEQ INFORMATION: The reference sequence is identical to\nCM053013.1.\nAssembly name: bRisTri1.patW.cur.20221130\nThe genomic sequence for this RefSeq record is from the\nwhole-genome assembly released by the Vertebrate Genomes Project on\n2023/02/09. The original whole-genome shotgun project has the\naccession JAPUFG000000000.1.\n\n##Genome-Assembly-Data-START##\nAssembly Provider :: Vertebrate Genomes Project\nAssembly Date :: 30-NOV-2022\nAssembly Method :: hifiasm v. 0.16.1+galaxy2; Bionano Solve\n v. 3.7.0+galaxy0; SALSA2 v. 2.3+galaxy2\nAssembly Name :: bRisTri1.patW.cur.20221130\nDiploid :: Paternal Haplotype\nGenome Representation :: Full\nExpected Final Version :: No\nGenome Coverage :: 33.0x\nSequencing Technology :: PacBio Sequel II HiFi; Bionano DLS; Arima\n Hi-C v2\n##Genome-Assembly-Data-END##\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: NCBI RefSeq\nAnnotation Status :: Full annotation\nAnnotation Name :: GCF_028500815.1-RS_2023_03\nAnnotation Pipeline :: NCBI eukaryotic genome annotation\n pipeline\nAnnotation Software Version :: 10.1\nAnnotation Method :: Gnomon; cmsearch; tRNAscan-SE\nFeatures Annotated :: Gene; mRNA; CDS; ncRNA\nAnnotation Date :: 03/08/2023\n##Genome-Annotation-Data-END##
small nucleolar RNA SNORA57; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.6:RF00191
Derived by automated computational analysis using gene prediction method: cmsearch.
ubiquinol-cytochrome-c reductase complex assembly factor 3; Derived by automated computational analysis using gene prediction method: Gnomon.
ubiquinol-cytochrome-c reductase complex assembly factor 3, transcript variant X1
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.
translation initiation factor IF-2 isoform X1
ubiquinol-cytochrome-c reductase complex assembly factor 3, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 2 Proteins
ubiquinol-cytochrome-c reductase complex assembly factor 3 isoform X2
UBX domain protein 1; Derived by automated computational analysis using gene prediction method: Gnomon.
COORDINATES: polyA evidence [ECO:0006239]
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: UBX domain-containing protein 1
BSCL2 lipid droplet biogenesis associated, seipin; Derived by automated computational analysis using gene prediction method: Gnomon.
BSCL2 lipid droplet biogenesis associated, seipin
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: 16 Proteins
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.
heterogeneous nuclear ribonucleoprotein U like 2; Derived by automated computational analysis using gene prediction method: Gnomon.
heterogeneous nuclear ribonucleoprotein U like 2
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; deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 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; deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: heterogeneous nuclear ribonucleoprotein U-like protein 2
U2 spliceosomal RNA; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.6:RF00004
TATA-box binding protein associated factor 6 like; Derived by automated computational analysis using gene prediction method: Gnomon.
TATA-box binding protein associated factor 6 like, transcript variant X2
TATA-box binding protein associated factor 6 like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 7 Proteins
TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L isoform X1
TAF6-like RNA polymerase II p300/CBP-associated factor-associated factor 65 kDa subunit 6L isoform X2
transmembrane protein 179B; 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: 4 Proteins
uncharacterized LOC128901823; Derived by automated computational analysis using gene prediction method: Gnomon.
uncharacterized LOC128901823, transcript variant X2
uncharacterized LOC128901823, transcript variant X1
uncharacterized LOC128901823, transcript variant X3
small nucleolar RNA SNORD22; Derived by automated computational analysis using gene prediction method: cmsearch.
COORDINATES: nucleotide motif:Rfam:14.6:RF00099
WD repeat domain 74; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: WD repeat-containing protein 74
FAU ubiquitin like and ribosomal protein S30 fusion; Derived by automated computational analysis using gene prediction method: Gnomon.
FAU ubiquitin like and ribosomal protein S30 fusion, transcript variant X2
FAU ubiquitin like and ribosomal protein S30 fusion, transcript variant X1
FAU ubiquitin like and ribosomal protein S30 fusion, transcript variant X4
FAU ubiquitin like and ribosomal protein S30 fusion, transcript variant X5
FAU ubiquitin-like and ribosomal protein S30 isoform X2
FAU ubiquitin-like and ribosomal protein S30 isoform X1
FAU ubiquitin-like and ribosomal protein S30 isoform X4
mitochondrial ribosomal protein L49; Derived by automated computational analysis using gene prediction method: Gnomon.
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; deleted 2 bases in 1 codon; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
LOW QUALITY PROTEIN: 39S ribosomal protein L49, mitochondrial
FAU ubiquitin like and ribosomal protein S30 fusion, transcript variant X3
FAU ubiquitin-like and ribosomal protein S30 isoform X3
synoviolin 1; Derived by automated computational analysis using gene prediction method: Gnomon.
E3 ubiquitin-protein ligase synoviolin isoform X2
E3 ubiquitin-protein ligase synoviolin isoform X1
speedy/RINGO cell cycle regulator family member C; Derived by automated computational analysis using gene prediction method: Gnomon.
speedy/RINGO cell cycle regulator family member C, transcript variant X1
speedy/RINGO cell cycle regulator family member C, transcript variant X3
speedy/RINGO cell cycle regulator family member C, transcript variant X2
speedy/RINGO cell cycle regulator family member C, transcript variant X4
calpain 1; 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: 33 Proteins
DNA polymerase alpha 2, accessory subunit; Derived by automated computational analysis using gene prediction method: Gnomon.
DNA polymerase alpha 2, accessory subunit, transcript variant X2
DNA polymerase alpha 2, accessory subunit, transcript variant X3
DNA polymerase alpha 2, accessory subunit, transcript variant X5
DNA polymerase alpha 2, accessory subunit, transcript variant X4
DNA polymerase alpha 2, accessory subunit, transcript variant X1
DNA polymerase alpha subunit B isoform X2
DNA polymerase alpha subunit B isoform X3
DNA polymerase alpha subunit B isoform X1
DNA polymerase alpha subunit B isoform X4
CDC42 effector protein 2; Derived by automated computational analysis using gene prediction method: Gnomon.
CDC42 effector protein 2, transcript variant X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 21 Proteins
CDC42 effector protein 2, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 22 Proteins
CDC42 effector protein 2, transcript variant X3
CDC42 effector protein 2, transcript variant X4
CDC42 effector protein 2, transcript variant X5
double PHD fingers 2; Derived by automated computational analysis using gene prediction method: Gnomon.
double PHD fingers 2, transcript variant X1
double PHD fingers 2, transcript variant X2
solute carrier family 22 member 6-like; Derived by automated computational analysis using gene prediction method: Gnomon.
solute carrier family 22 member 6-like, transcript variant X2
solute carrier family 22 member 6-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 51 Proteins
solute carrier family 22 member 6-B-like isoform X2
solute carrier family 22 member 6-like isoform X1
solute carrier family 22 member 6-like, transcript variant X3
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 11 Proteins
solute carrier family 22 member 6-like isoform X3
solute carrier family 22 member 6-A-like; Derived by automated computational analysis using gene prediction method: Gnomon.
solute carrier family 22 member 6-A-like, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 50 Proteins
solute carrier family 22 member 6-A-like isoform X1
solute carrier family 22 member 6-A-like, transcript variant X2
solute carrier family 22 member 6-A-like isoform X2
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 43 Proteins
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 6 Proteins
uncharacterized LOC128901833; Derived by automated computational analysis using gene prediction method: Gnomon.
dr1-associated corepressor-like; Derived by automated computational analysis using gene prediction method: Gnomon.
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: 3 Proteins
LOW QUALITY PROTEIN: dr1-associated corepressor-like
beta-1,3-glucuronyltransferase 3; Derived by automated computational analysis using gene prediction method: Gnomon.
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; 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: inserted 1 base in 1 codon; deleted 2 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase 3
glucosidase II alpha subunit; Derived by automated computational analysis using gene prediction method: Gnomon.
glucosidase II alpha subunit, transcript variant X2
glucosidase II alpha subunit, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 17 Proteins
zinc finger and BTB domain containing 3; Derived by automated computational analysis using gene prediction method: Gnomon.
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: 2 Proteins
LOW QUALITY PROTEIN: zinc finger and BTB domain-containing protein 3
Ras converting CAAX endopeptidase 1; Derived by automated computational analysis using gene prediction method: Gnomon.
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: inserted 2 bases in 2 codons; deleted 2 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 1 Protein
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: inserted 2 bases in 2 codons; deleted 2 bases in 2 codons; substituted 1 base at 1 genomic stop codon; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: CAAX prenyl protease 2
spectrin beta, non-erythrocytic 2; Derived by automated computational analysis using gene prediction method: Gnomon.
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: 19 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: spectrin beta chain, non-erythrocytic 2
terminal uridylyl transferase 1, U6 snRNA-specific; Derived by automated computational analysis using gene prediction method: Gnomon.
terminal uridylyl transferase 1, U6 snRNA-specific
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: 3 Proteins
LOW QUALITY PROTEIN: speckle targeted PIP5K1A-regulated poly(A) polymerase
transmembrane protein 223; Derived by automated computational analysis using gene prediction method: Gnomon.
The sequence of the model RefSeq transcript was modified relative to this genomic sequence to represent the inferred CDS: deleted 5 bases in 5 codons
The sequence of the model RefSeq protein was modified relative to this genomic sequence to represent the inferred CDS: deleted 5 bases in 5 codons; Derived by automated computational analysis using gene prediction method: Gnomon.
LOW QUALITY PROTEIN: transmembrane protein 223
uncharacterized LOC128901820; Derived by automated computational analysis using gene prediction method: Gnomon.
nuclear RNA export factor 1; Derived by automated computational analysis using gene prediction method: Gnomon.
nuclear RNA export factor 1, transcript variant X2
nuclear RNA export factor 1, transcript variant X1
nuclear RNA export factor 1, transcript variant X3
syntaxin 5; Derived by automated computational analysis using gene prediction method: Gnomon.
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: 10 Proteins
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.
uncharacterized LOC128901811; Derived by automated computational analysis using gene prediction method: Gnomon.
N-alpha-acetyltransferase 40, NatD catalytic subunit; Derived by automated computational analysis using gene prediction method: Gnomon.
N-alpha-acetyltransferase 40, NatD catalytic subunit, transcript variant X2
N-alpha-acetyltransferase 40, NatD catalytic subunit, transcript variant X1
Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 10 Proteins
REST corepressor 2; 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: 29 Proteins
microtubule affinity regulating kinase 2; Derived by automated computational analysis using gene prediction method: Gnomon.
microtubule affinity regulating kinase 2
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: 21 Proteins
LOW QUALITY PROTEIN: serine/threonine-protein kinase MARK2
reticulon 3; Derived by automated computational analysis using gene prediction method: Gnomon.
pyruvate carboxylase; Derived by automated computational analysis using gene prediction method: Gnomon.
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; deleted 2 bases in 2 codons; Derived by automated computational analysis using gene prediction method: Gnomon. Supporting evidence includes similarity to: 3 Proteins
LOW QUALITY PROTEIN: pyruvate carboxylase, mitochondrial