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Col7a1 collagen type VII alpha 1 chain [ Rattus norvegicus (Norway rat) ]

Gene ID: 301012, updated on 6-May-2021

Summary

Official Symbol
Col7a1provided by RGD
Official Full Name
collagen type VII alpha 1 chainprovided by RGD
Primary source
RGD:1311417
See related
Ensembl:ENSRNOG00000020579
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Expression
Biased expression in Uterus (RPKM 26.9), Adrenal (RPKM 21.9) and 8 other tissues See more
Orthologs
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Genomic context

See Col7a1 in Genome Data Viewer
Location:
8q32
Exon count:
118
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (109604877..109637252)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (117694441..117726844)

Chromosome 8 - NC_051343.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108351778 Neighboring gene U2 spliceosomal RNA Neighboring gene ubiquinol-cytochrome c reductase core protein 1 Neighboring gene microRNA 711 Neighboring gene urocortin 2 Neighboring gene 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4

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

Bibliography

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
 
involved_in endodermal cell differentiation ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in basement membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in cellular_component ND
No biological Data available
more info
 
is_active_in collagen-containing 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 

General protein information

Preferred Names
collagen alpha-1(VII) chain
Names
collagen, type VII, alpha 1
procollagen, type VII, alpha 1

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_001106858.2NP_001100328.2  collagen alpha-1(VII) chain precursor

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000200
    Related
    ENSRNOP00000027994.6, ENSRNOT00000027994.6
    Conserved Domains (9) summary
    PHA03169
    Location:20532202
    PHA03169; hypothetical protein; Provisional
    PRK07764
    Location:15091714
    PRK07764; DNA polymerase III subunits gamma and tau; Validated
    PRK12678
    Location:24032636
    PRK12678; transcription termination factor Rho; Provisional
    cd00063
    Location:688772
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00109
    Location:28772932
    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.
    cd01482
    Location:38202
    vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
    pfam00041
    Location:236318
    fn3; Fibronectin type III domain
    pfam00092
    Location:10551223
    VWA; von Willebrand factor type A domain
    pfam01391
    Location:16131668
    Collagen; Collagen triple helix repeat (20 copies)

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_051343.1 Reference mRatBN7.2 Primary Assembly

    Range
    109604877..109637252
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039081240.1XP_038937168.1  collagen alpha-1(VII) chain isoform X1

    Conserved Domains (9) summary
    PHA03169
    Location:20532202
    PHA03169; hypothetical protein; Provisional
    PRK07764
    Location:15091714
    PRK07764; DNA polymerase III subunits gamma and tau; Validated
    PRK12678
    Location:24032636
    PRK12678; transcription termination factor Rho; Provisional
    cd00063
    Location:688772
    FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    cd00109
    Location:28772932
    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.
    cd01482
    Location:38202
    vWA_collagen_alphaI-XII-like; Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different ...
    pfam00041
    Location:236318
    fn3; Fibronectin type III domain
    pfam00092
    Location:10551223
    VWA; von Willebrand factor type A domain
    pfam01391
    Location:16131668
    Collagen; Collagen triple helix repeat (20 copies)
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