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Col4a2 collagen type IV alpha 2 chain [ Rattus norvegicus (Norway rat) ]

Gene ID: 306628, updated on 18-Apr-2019

Summary

Official Symbol
Col4a2provided by RGD
Official Full Name
collagen type IV alpha 2 chainprovided by RGD
Primary source
RGD:1308085
See related
Ensembl:ENSRNOG00000023972
Gene type
protein coding
RefSeq status
MODEL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Expression
Biased expression in Heart (RPKM 790.7), Lung (RPKM 732.5) and 9 other tissues See more
Orthologs

Genomic context

See Col4a2 in Genome Data Viewer
Location:
16q12.5
Exon count:
49
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (83386388..83522169, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 16 NC_005115.3 (82852230..82987790, complement)

Chromosome 16 - NC_005115.4Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102553902 Neighboring gene RAB20, member RAS oncogene family Neighboring gene collagen type IV alpha 1 chain Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene uncharacterized LOC102554055 Neighboring gene uncharacterized LOC103694004

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Pathways from BioSystems

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
extracellular matrix structural constituent IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
aging IEP
Inferred from Expression Pattern
more info
PubMed 
cellular response to transforming growth factor beta stimulus IEA
Inferred from Electronic Annotation
more info
 
cellular response to transforming growth factor beta stimulus ISO
Inferred from Sequence Orthology
more info
PubMed 
collagen-activated tyrosine kinase receptor signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
collagen-activated tyrosine kinase receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
PubMed 
endodermal cell differentiation IEA
Inferred from Electronic Annotation
more info
 
endodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
PubMed 
extracellular matrix organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of angiogenesis IEA
Inferred from Electronic Annotation
more info
 
negative regulation of angiogenesis ISO
Inferred from Sequence Orthology
more info
PubMed 
response to activity IEP
Inferred from Expression Pattern
more info
PubMed 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
PubMed 
Component Evidence Code Pubs
basement membrane ISO
Inferred from Sequence Orthology
more info
PubMed 
cellular_component ND
No biological Data available
more info
 
collagen type IV trimer IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
collagen type IV trimer ISO
Inferred from Sequence Orthology
more info
PubMed 
extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular region TAS
Traceable Author Statement
more info
 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
collagen alpha-2(IV) chain; LOW QUALITY PROTEIN: collagen alpha-2(IV) chain
Names
alpha-2 collagen type IV
collagen, type IV, alpha 2
procollagen, type IV, alpha 2

NCBI Reference Sequences (RefSeq)

RefSeqs of Annotated Genomes: Rattus norvegicus 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 Rnor_6.0 Primary Assembly

Genomic

  1. NC_005115.4 Reference Rnor_6.0 Primary Assembly

    Range
    83386388..83522169 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008771417.2XP_008769639.1  LOW QUALITY PROTEIN: collagen alpha-2(IV) chain isoform X1

    Related
    ENSRNOP00000054270.4, ENSRNOT00000057461.4
    Conserved Domains (2) summary
    pfam01391
    Location:776833
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01413
    Location:15941704
    C4; C-terminal tandem repeated domain in type 4 procollagen

Alternate Rn_Celera

Genomic

  1. AC_000084.1 Alternate Rn_Celera

    Range
    75846004..75981238 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_001076134.6XP_001076134.3  collagen alpha-2(IV) chain isoform X2

    Conserved Domains (2) summary
    pfam01391
    Location:777834
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01413
    Location:15951705
    C4; C-terminal tandem repeated domain in type 4 procollagen
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