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col1a2 collagen, type I, alpha 2 [ Danio rerio (zebrafish) ]

Gene ID: 336471, updated on 14-Nov-2021

Summary

Official Symbol
col1a2provided by ZNC
Official Full Name
collagen, type I, alpha 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-8415
See related
Ensembl:ENSDARG00000020007
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
zehn2357; alpha2(I); wu:fa98d05; wu:fa99g10; wu:fb04c08; wu:fb11d06; hm:zehn2357
Orthologs
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Genomic context

See col1a2 in Genome Data Viewer
Location:
chromosome: 19
Exon count:
50
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (40983218..41002610)
105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (41396092..41415219)
103 previous assembly Zv9 (GCF_000002035.4) 19 NC_007130.5 (41943830..41963236)

Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene zgc:85777 Neighboring gene si:ch211-120e1.7 Neighboring gene Bet1 golgi vesicular membrane trafficking protein Neighboring gene CAS1 domain containing 1 Neighboring gene sarcoglycan, epsilon Neighboring gene protein phosphatase 1, regulatory subunit 9A

Genomic regions, transcripts, and products

Expression

  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

General gene information

Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables extracellular matrix structural constituent IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables extracellular matrix structural constituent IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
part_of collagen trimer IEA
Inferred from Electronic Annotation
more info
 
part_of collagen type I trimer IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

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_182968.2NP_892013.2  collagen alpha-2(I) chain precursor

    See identical proteins and their annotated locations for NP_892013.2

    Status: PROVISIONAL

    Source sequence(s)
    BC071278
    UniProtKB/TrEMBL
    Q6IQX2
    Related
    ENSDARP00000118091.1, ENSDART00000144544.3
    Conserved Domains (2) summary
    pfam01391
    Location:936995
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01410
    Location:11201351
    COLFI; Fibrillar collagen C-terminal domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007130.7 Reference GRCz11 Primary Assembly

    Range
    40983218..41002610
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005159713.4XP_005159770.1  collagen alpha-2(I) chain isoform X1

    Conserved Domains (2) summary
    pfam01391
    Location:903962
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01410
    Location:10871318
    COLFI; Fibrillar collagen C-terminal domain
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