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col20a1 collagen, type XX, alpha 1 [ Xenopus tropicalis (tropical clawed frog) ]

Gene ID: 101731976, updated on 8-Mar-2024

Summary

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Official Symbol
col20a1provided by Xenbase
Official Full Name
collagen, type XX, alpha 1provided by Xenbase
Primary source
Xenbase:XB-GENE-6047460
See related
Ensembl:ENSXETG00000043980
Gene type
protein coding
RefSeq status
MODEL
Organism
Xenopus tropicalis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Silurana
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 10
Exon count:
38
Annotation release Status Assembly Chr Location
104 current UCB_Xtro_10.0 (GCF_000004195.4) 10 NC_030686.2 (2124194..2172277, complement)
103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) Unplaced Scaffold NW_016685118.1 (4415..7787, complement)

Chromosome 10 - NC_030686.2Genomic Context describing neighboring genes Neighboring gene E3 ubiquitin/ISG15 ligase TRIM25 Neighboring gene cholinergic receptor, nicotinic alpha 4 Neighboring gene DEP domain containing MTOR interacting protein like Neighboring gene ADP ribosylation factor GTPase activating protein 1

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 Xenbase

Component Evidence Code Pubs
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
collagen alpha-1(XX) chain
Names
collagen type XX alpha 1 chain

NCBI Reference Sequences (RefSeq)

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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_030686.2 Reference UCB_Xtro_10.0 Primary Assembly

    Range
    2124194..2172277 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_031894715.1 → XP_031750575.1  collagen alpha-1(XX) chain isoform X2

    UniProtKB/TrEMBL
    A0A803K104
    Related
    ENSXETP00000114004.1, ENSXETT00000106030.1
    Conserved Domains (5) summary
    cd00063
    Location:425 → 500
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd01482
    Location:219 → 381
    vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
    pfam00041
    Location:513 → 592
    fn3; Fibronectin type III domain
    pfam01391
    Location:1061 → 1116
    Collagen; Collagen triple helix repeat (20 copies)
    cl22861
    Location:813 → 1007
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...

  2. XM_031894714.1 → XP_031750574.1  collagen alpha-1(XX) chain isoform X1

    UniProtKB/TrEMBL
    A0A803K045
    Related
    ENSXETP00000113698.1, ENSXETT00000116937.1
    Conserved Domains (5) summary
    cd00063
    Location:425 → 500
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd01482
    Location:219 → 381
    vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
    pfam00041
    Location:513 → 592
    fn3; Fibronectin type III domain
    pfam01391
    Location:1294 → 1341
    Collagen; Collagen triple helix repeat (20 copies)
    cl22861
    Location:813 → 1007
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
Nucleotide Protein Strain
Heading Accession and Version

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