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COL2A1 collagen type II alpha 1 chain [ Bos taurus (domestic cattle) ]

Gene ID: 407142, updated on 4-Oct-2024

Summary

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Official Symbol
COL2A1provided by VGNC
Official Full Name
collagen type II alpha 1 chainprovided by VGNC
Primary source
VGNC:VGNC:27564
See related
Ensembl:ENSBTAG00000013155
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Bos taurus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
Also known as
CB11
Orthologs
human mouse all
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Genomic context

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See COL2A1 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
54
Annotation release Status Assembly Chr Location
RS_2023_09 current ARS-UCD2.0 (GCF_002263795.3) 5 NC_037332.1 (32283180..32313172)

Chromosome 5 - NC_037332.1Genomic Context describing neighboring genes Neighboring gene phosphofructokinase, muscle Neighboring gene SUMO specific peptidase 1 Neighboring gene transmembrane protein 106C Neighboring gene large ribosomal subunit protein eL22-like

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_037332.1 Chromosome 5 Reference ARS-UCD2.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Sphingomyelinase decreases type II collagen expression in bovine articular cartilage chondrocytes via the ERK signaling pathway. Gilbert SJ, et al. Arthritis Rheum, 2008 Jan. PMID 18163502
  2. The covalent structure of cartilage collagen. Amino acid sequence of the NH2-terminal helical portion of the alpha 1 (II) chain. Butler WT, et al. Biochemistry, 1976 Jul 13. PMID 782511
  3. The covalent structure of cartilage collagen. Evidence for sequence heterogeneity of bovine alpha1(II) chains. Butler WT, et al. J Biol Chem, 1977 Jan 25. PMID 833147
  4. Analysis of cDNA and genomic clones coding for the pro alpha 1 chain of calf type II collagen. Sangiorgi FO, et al. Nucleic Acids Res, 1985 Apr 25. PMID 2582365, Free PMC Article
  5. Covalent structure of collagen. Amino acid sequence of an arthritogenic cyanogen bromide peptide from type II collagen of bovine cartilage. Seyer JM, et al. Eur J Biochem, 1989 Apr 15. PMID 2714276

See all (28) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Structural changes in collagen and aggrecan during extended aging may improve beef tenderness.
    Title: Structural changes in collagen and aggrecan during extended aging may improve beef tenderness.
  2. spontaneous missense mutation within COL2A1 in chondrodysplasia
    Title: Germline mutation within COL2A1 associated with lethal chondrodysplasia in a polled Holstein family.
  3. a first example of a dominant COL2A1 splice site variant as candidate causal mutation of a severe lethal chondrodysplasia phenotype
    Title: Lethal chondrodysplasia in a family of Holstein cattle is associated with a de novo splice site variant of COL2A1.
  4. Denaturation of the chimeric collagen increased its affinity for fibronectin, as seen for mammalian collagens.
    Title: Definition of the native and denatured type II collagen binding site for fibronectin using a recombinant collagen system.
  5. Two subsystems of meniscal collagen and their different thermal stabilities.
    Title: Two subsystems of meniscal collagen and their different thermal stabilities.
  6. Data show that expression of mRNAs for aggrecan, collagen type II, and versican were significantly effected by the intervention.
    Title: Disc strain and resulting positive mRNA expression from application of a noninvasive treatment.
  7. Data show that biglycan, collagen type I, collagen type II, decorin, and versican were significantly affected by vibration duration, frequency, and amplitude.
    Title: Free axial vibrations at 0 to 200 Hz positively affect extracellular matrix messenger ribonucleic acid expression in bovine nucleus pulposi.
  8. The distribution of type II and VI collagen was immunocytochemically investigated in bovine articular and nasal cartilage.
    Title: Type II and VI collagen in nasal and articular cartilage and the effect of IL-1alpha on the distribution of these collagens.
  9. IGF-I dose-dependently maintained cartilage formation
    Title: Cartilage formation measured by a novel PIINP assay suggests that IGF-I does not stimulate but maintains cartilage formation ex vivo.
  10. Response of the chondrocyte to a cryptic sequence of denaturated type II collagen may play a role in naturally occurring hypertrophy in endochondral ossification and in the development of cartilage pathology in osteoarthritis.
    Title: [Type II collagen fragment capacity to induce collagen cleavage and hypertrophy of articular chondrocyte].
Submit: New GeneRIF Correction See all GeneRIFs (14)

Pathways from PubChem

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General gene information

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Markers

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
Names
alpha-1 type II collagen
collagen, type II, alpha 1
pro-alpha 1(II)

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001001135.3 → NP_001001135.2  collagen alpha-1(II) chain isoform 1 preproprotein

    See identical proteins and their annotated locations for NP_001001135.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
    Source sequence(s)
    DAAA02012985, DAAA02012986
    UniProtKB/Swiss-Prot
    P02459, Q28070, Q9XT24, Q9XT25
    Related
    ENSBTAP00000017505.5, ENSBTAT00000017505.6
    Conserved Domains (3) summary
    pfam01391
    Location:801 → 860
    Collagen; Collagen triple helix repeat (20 copies)
    pfam00093
    Location:34 → 89
    VWC; von Willebrand factor type C domain
    pfam01410
    Location:1254 → 1486
    COLFI; Fibrillar collagen C-terminal domain

  2. NM_001113224.2 → NP_001106695.1  collagen alpha-1(II) chain isoform 2 precursor

    See identical proteins and their annotated locations for NP_001106695.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1, resulting in a shorter protein. The resulting protein (isoform 2) lacks the von Willebrand factor type C (VWC) domain, compared to isoform 1. This isoform (2) may undergo proteolytic processing similar to isoform 1.
    Source sequence(s)
    DAAA02012985, DAAA02012986
    UniProtKB/TrEMBL
    A0AAA9T7E0
    Related
    ENSBTAP00000092672.1, ENSBTAT00000130023.1
    Conserved Domains (2) summary
    pfam01391
    Location:732 → 791
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01410
    Location:1185 → 1417
    COLFI; Fibrillar collagen C-terminal domain

RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2023_09

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

Reference ARS-UCD2.0 Primary Assembly

Genomic

  1. NC_037332.1 Reference ARS-UCD2.0 Primary Assembly

    Range
    32283180..32313172
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P02459.4 GenPept UniProtKB/Swiss-Prot:P02459

Gene LinkOut

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