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Col4a5 collagen type IV alpha 5 chain [ Rattus norvegicus (Norway rat) ]

Gene ID: 363457, updated on 6-May-2021

Summary

Official Symbol
Col4a5provided by RGD
Official Full Name
collagen type IV alpha 5 chainprovided by RGD
Primary source
RGD:1565499
See related
Ensembl:ENSRNOG00000018951
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
Also known as
RGD1565499
Expression
Biased expression in Lung (RPKM 378.4), Heart (RPKM 277.8) and 9 other tissues See more
Orthologs
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Genomic context

See Col4a5 in Genome Data Viewer
Location:
Xq33
Exon count:
53
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (105118762..105322699)
106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (112769595..112983720)

Chromosome X - NC_051356.1Genomic Context describing neighboring genes Neighboring gene autophagy related 4A, cysteine peptidase Neighboring gene collagen type IV alpha 6 chain Neighboring gene 60S ribosomal protein L10a-like Neighboring gene insulin receptor substrate 4 Neighboring gene similar to Glyceraldehyde-3-phosphate dehydrogenase (GAPDH)

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

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables extracellular matrix structural constituent IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables molecular_function ND
No biological Data available
more info
 
Component Evidence Code Pubs
is_active_in basement membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in basement membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in cellular_component ND
No biological Data available
more info
 
part_of collagen type IV trimer ISO
Inferred from Sequence Orthology
more info
 
is_active_in extracellular matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in neuromuscular junction ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
collagen alpha-5(IV) chain
Names
collagen, type IV, alpha 5
procollagen, type IV, alpha 5

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051356.1 Reference mRatBN7.2 Primary Assembly

    Range
    105118762..105322699
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_343778.7XP_343779.2  collagen alpha-5(IV) chain isoform X1

    See identical proteins and their annotated locations for XP_343779.2

    UniProtKB/TrEMBL
    F1LUN5
    Related
    ENSRNOP00000058823.3
    Conserved Domains (2) summary
    pfam01391
    Location:10741132
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01413
    Location:15791688
    C4; C-terminal tandem repeated domain in type 4 procollagen
  2. XM_006257312.2XP_006257374.1  collagen alpha-5(IV) chain isoform X2

    See identical proteins and their annotated locations for XP_006257374.1

    Conserved Domains (2) summary
    pfam01391
    Location:10741132
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01413
    Location:15761685
    C4; C-terminal tandem repeated domain in type 4 procollagen
  3. XM_006257313.2XP_006257375.1  collagen alpha-5(IV) chain isoform X3

    See identical proteins and their annotated locations for XP_006257375.1

    Conserved Domains (2) summary
    pfam01391
    Location:10741132
    Collagen; Collagen triple helix repeat (20 copies)
    pfam01413
    Location:15731682
    C4; C-terminal tandem repeated domain in type 4 procollagen
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