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col5a1 procollagen, type V, alpha 1 [ Oryzias melastigma (Indian medaka) ]

Gene ID: 112162870, updated on 12-Sep-2024

Summary

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Gene symbol
col5a1
Gene description
procollagen, type V, alpha 1
See related
EnsemblRapid:ENSOMEG00005017055
Gene type
protein coding
RefSeq status
MODEL
Organism
Oryzias melastigma
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Ovalentaria; Atherinomorphae; Beloniformes; Adrianichthyidae; Oryziinae; Oryzias
Orthologs
zebrafish all
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Genomic context

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Location:
chromosome: LG12
Exon count:
67
Annotation release Status Assembly LG Location
101 current ASM292280v2 (GCF_002922805.2) LG12 NC_050523.1 (5919635..6018431)
100 previous assembly Om_v0.7.RACA (GCF_002922805.1) Unplaced Scaffold NW_020096103.1 (5919710..6018277)

Linkage Group LG12 - NC_050523.1Genomic Context describing neighboring genes Neighboring gene formin binding protein 1b Neighboring gene uncharacterized LOC118599477 Neighboring gene uncharacterized LOC118599435 Neighboring gene olfactomedin 1b Neighboring gene uncharacterized LOC112162832

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. Tissue-specific transcriptome assemblies of the marine medaka Oryzias melastigma and comparative analysis with the freshwater medaka Oryzias latipes. Lai KP, et al. BMC Genomics, 2015 Feb 27. PMID 25765076, Free PMC Article

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 

General protein information

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

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Oryzias melastigma Annotation Release 101 details...Open this link in a new tab

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

Reference ASM292280v2 Primary Assembly

Genomic

  1. NC_050523.1 Reference ASM292280v2 Primary Assembly

    Range
    5919635..6018431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024298811.2 → XP_024154579.1  collagen alpha-1(V) chain isoform X2

    Related
    ENSOMEP00005038888.1, ENSOMET00005043307.1
    Conserved Domains (4) summary
    pfam01391
    Location:1008 → 1067
    Collagen; Collagen triple helix repeat (20 copies)
    smart00210
    Location:36 → 227
    TSPN; Thrombospondin N-terminal -like domains
    pfam01410
    Location:1752 → 1978
    COLFI; Fibrillar collagen C-terminal domain
    pfam09606
    Location:590 → 907
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

  2. XM_024298810.2 → XP_024154578.1  collagen alpha-1(V) chain isoform X1

    UniProtKB/TrEMBL
    A0A834BWA7
    Related
    ENSOMEP00005038890.1, ENSOMET00005043309.1
    Conserved Domains (4) summary
    pfam01391
    Location:1008 → 1067
    Collagen; Collagen triple helix repeat (20 copies)
    smart00210
    Location:36 → 227
    TSPN; Thrombospondin N-terminal -like domains
    pfam01410
    Location:1752 → 1978
    COLFI; Fibrillar collagen C-terminal domain
    pfam09606
    Location:590 → 907
    Med15; ARC105 or Med15 subunit of Mediator complex non-fungal
Nucleotide Protein Strain
Heading Accession and Version

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