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    LOC100490088 collagen alpha-1(XXVIII) chain [ Xenopus tropicalis (tropical clawed frog) ]

    Gene ID: 100490088, updated on 4-Nov-2024

    Summary

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    Official Symbol
    LOC100490088provided by Xenbase
    Official Full Name
    collagen alpha-1(XXVIII) chainprovided by Xenbase
    Primary source
    Xenbase:XB-GENE-29080031
    See related
    Ensembl:ENSXETG00000009798 AllianceGenome:Xenbase:XB-GENE-29080031
    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
    Summary
    Predicted to enable serine-type endopeptidase inhibitor activity. Predicted to act upstream of or within cell adhesion. Predicted to be part of collagen trimer. [provided by Alliance of Genome Resources, Nov 2024]
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    Genomic context

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    See LOC100490088 in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    37
    Annotation release Status Assembly Chr Location
    104 current UCB_Xtro_10.0 (GCF_000004195.4) 9 NC_030685.2 (68628992..68667958, complement)
    103 previous assembly Xenopus_tropicalis_v9.1 (GCF_000004195.3) 9 NC_030685.1 (63565459..63609635, complement)

    Chromosome 9 - NC_030685.2Genomic Context describing neighboring genes Neighboring gene protein FAM135A-like Neighboring gene uncharacterized LOC116407734 Neighboring gene LDL receptor related protein 2 Neighboring gene uncharacterized XB5957220

    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

    Function Evidence Code Pubs
    enables serine-type endopeptidase inhibitor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of collagen trimer IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    collagen alpha-1(XXVIII) 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_030685.2 Reference UCB_Xtro_10.0 Primary Assembly

      Range
      68628992..68667958 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_002936757.4 → XP_002936803.2  collagen alpha-1(XXVIII) chain

      UniProtKB/TrEMBL
      F6TWH3
      Related
      ENSXETP00000035281.5, ENSXETT00000035281.5
      Conserved Domains (5) summary
      pfam01391
      Location:497 → 556
      Collagen; Collagen triple helix repeat (20 copies)
      cd00109
      Location:1164 → 1217
      KU; BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure.
      pfam09606
      Location:323 → 682
      Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
      pfam00092
      Location:58 → 239
      VWA; von Willebrand factor type A domain
      cl00057
      Location:809 → 999
      vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
    Nucleotide Protein Strain
    Heading Accession and Version

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