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COL2A1 collagen type II alpha 1 chain [ Alligator mississippiensis (American alligator) ]

Gene ID: 102576638, updated on 10-Mar-2024

Summary

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Gene symbol
COL2A1
Gene description
collagen type II alpha 1 chain
Locus tag
Y1Q_0009037
Gene type
protein coding
RefSeq status
MODEL
Organism
Alligator mississippiensis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Archelosauria; Archosauria; Crocodylia; Alligatoridae; Alligatorinae; Alligator
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 15
Exon count:
55
Annotation release Status Assembly Chr Location
RS_2023_09 current rAllMis1 (GCF_030867095.1) 15 NC_081838.1 (9000442..9043119, complement)
102 previous assembly ASM28112v4 (GCF_000281125.3) Unplaced Scaffold NW_017708309.1 (295258..338146, complement)

Chromosome 15 - NC_081838.1Genomic Context describing neighboring genes Neighboring gene vitamin D receptor Neighboring gene uncharacterized LOC132245763 Neighboring gene transmembrane protein 106C Neighboring gene SUMO specific peptidase 1 Neighboring gene phosphofructokinase, muscle Neighboring gene ankyrin repeat and SOCS box containing 8

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables extracellular matrix structural constituent IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables protein binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of collagen type II trimer IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
collagen alpha-1(II) chain

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_030867095.1-RS_2023_09

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference rAllMis1 Primary Assembly

Genomic

  1. NC_081838.1 Reference rAllMis1 Primary Assembly

    Range
    9000442..9043119 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_014610052.3 → XP_014465538.1  collagen alpha-1(II) chain isoform X1

    Conserved Domains (3) summary
    pfam01391
    Location:495 → 554
    Collagen; Collagen triple helix repeat (20 copies)
    pfam00093
    Location:37 → 92
    VWC; von Willebrand factor type C domain
    pfam01410
    Location:1257 → 1489
    COLFI; Fibrillar collagen C-terminal domain

  2. XM_006273340.4 → XP_006273402.1  collagen alpha-1(II) chain isoform X2

    Conserved Domains (2) summary
    pfam01391
    Location:426 → 485
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01410
    Location:1188 → 1420
    COLFI; Fibrillar collagen C-terminal domain
Nucleotide Protein
Heading Accession and Version

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