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col2a1 collagen, type II, alpha 1 [ Xenopus tropicalis (tropical clawed frog) ]

Gene ID: 394828, updated on 26-Sep-2020

Summary

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Official Symbol
col2a1provided by Xenbase
Official Full Name
collagen, type II, alpha 1provided by Xenbase
Primary source
Xenbase:XB-GENE-6258353
See related
Ensembl:ENSXETG00000019459
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Xenopus tropicalis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Also known as
col11a3; xcol2a1; col2a1-a; col2a1-b
Orthologs
human mouse all
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Genomic context

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See col2a1 in Genome Data Viewer
Location:
chromosome: 2
Exon count:
54
Annotation release Status Assembly Chr Location
104 current UCB_Xtro_10.0 (GCF_000004195.4) 2 NC_030678.2 (143714087..143762160)
103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 2 NC_030678.1 (140468231..140516271)

Chromosome 2 - NC_030678.2Genomic Context describing neighboring genes Neighboring gene E3 ubiquitin-protein ligase TRIM39 Neighboring gene general transcription factor IIH subunit 4 Neighboring gene transmembrane protein 106C Neighboring gene vitamin D receptor

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

General gene information

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Homology

General protein information

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Preferred Names
collagen alpha-1(II) chain
Names
X-col II
alpha-1 type II collagen

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_203889.1 → NP_989220.1  collagen alpha-1(II) chain precursor

    See identical proteins and their annotated locations for NP_989220.1

    Status: PROVISIONAL

    Source sequence(s)
    BC063191
    UniProtKB/Swiss-Prot
    Q6P4Z2
    Related
    ENSXETP00000052787.1, ENSXETT00000054222.1
    Conserved Domains (5) summary
    pfam01391
    Location:497 → 556
    Collagen; Collagen triple helix repeat (20 copies)
    smart00214
    Location:38 → 93
    VWC; von Willebrand factor (vWF) type C domain
    PRK07764
    Location:816 → 1057
    PRK07764; DNA polymerase III subunits gamma and tau; Validated
    pfam09606
    Location:393 → 785
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
    pfam01410
    Location:1256 → 1491
    COLFI; Fibrillar collagen C-terminal domain

RefSeqs of Annotated Genomes: Xenopus tropicalis Annotation Release 104 details...Open this link in a new tab

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

Reference UCB_Xtro_10.0 Primary Assembly

Genomic

  1. NC_030678.2 Reference UCB_Xtro_10.0 Primary Assembly

    Range
    143714087..143762160
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_012956661.3 → XP_012812115.1  collagen alpha-1(II) chain isoform X1

    Conserved Domains (3) summary
    pfam01391
    Location:497 → 556
    Collagen; Collagen triple helix repeat (20 copies)
    smart00214
    Location:38 → 93
    VWC; von Willebrand factor (vWF) type C domain
    pfam01410
    Location:1205 → 1437
    COLFI; Fibrillar collagen C-terminal domain

  2. XM_012956663.3 → XP_012812117.1  collagen alpha-1(II) chain isoform X2

    Related
    ENSXETP00000052793.1
    Conserved Domains (2) summary
    pfam01391
    Location:427 → 486
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01410
    Location:1189 → 1421
    COLFI; Fibrillar collagen C-terminal domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q6P4Z2.1 GenPept UniProtKB/Swiss-Prot:Q6P4Z2

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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