Col3a1 collagen type III alpha 1 chain [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Col3a1provided by RGD
Official Full Name: collagen type III alpha 1 chainprovided by RGD
Primary source: RGD:71029
See related: Ensembl:ENSRNOG00000003357 AllianceGenome:RGD:71029
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable several functions, including integrin binding activity; platelet-derived growth factor binding activity; and protease binding activity. Predicted to be an extracellular matrix structural constituent. Involved in response to mechanical stimulus and skeletal system development. Located in collagen-containing extracellular matrix. Biomarker of bladder neck obstruction; glomerulosclerosis; myocardial infarction; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome; Ehlers-Danlos syndrome hypermobility type; end stage renal disease; and vascular type Ehlers-Danlos syndrome. Orthologous to human COL3A1 (collagen type III alpha 1 chain). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Uterus (RPKM 5601.8), Muscle (RPKM 4795.9) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q22

Exon count:: 51

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (54866646..54902578)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (47374611..47410547)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (52023295..52059221)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Expression of Metalloproteinases and Type I and III Collagens during Healing of Excisional Skin Wound on the Abdomen and Back in Rats.
Title: Expression of Metalloproteinases and Type I and III Collagens during Healing of Excisional Skin Wound on the Abdomen and Back in Rats.
the activation of Pin1 promoted cardiac extracellular matrix deposition and oxidative stress damage by regulating the phosphorylation of the MEK1/2ERK1/2 signaling pathway and the expression of alphaSMA.
Title: Pin1 facilitates isoproterenol‑induced cardiac fibrosis and collagen deposition by promoting oxidative stress and activating the MEK1/2‑ERK1/2 signal transduction pathway in rats.
the diagnostic value of urinary collagen degradation products in a proteinuria-driven fibrosis rat model, was investigated.
Title: Urinary collagen degradation products as early markers of progressive renal fibrosis.
miR-let-7b and COL3A1 might play critical roles in neuronal injury, they are potential therapeutic targets.
Title: Dexmedetomidine Protects PC12 Cells from Lidocaine-Induced Cytotoxicity Through Downregulation of COL3A1 Mediated by miR-let-7b.
Data show that collagen type III (Col3), collagen type IV (Col4) and p38 mitogen-activated protein kinase (p38 MAPK) are up-regulated in models of diabetic nephropathy.
Title: [Down-regulation of p38 MAPK and collagen by 1, 25-(OH)2-VD3 in rat models of diabetic nephropathy].
High Collagen Type III expression is associated with renal fibrosis in experimental kidney diseases.
Title: Serum and urine markers of collagen degradation reflect renal fibrosis in experimental kidney diseases.
Hypoxia alone can upregulate DNA synthesis and expression of collagen type I and III mRNA in adult rat cardiac fibroblasts.
Title: [Hypoxia promote the DNA synthesis and the expression of collagen type I and III mRNA in cultured adult rat cardiac fibroblasts].
The mRNA and protein content of collagen I, collagen III and elastin in the abdominal aorta (AA) and femoral artery (FA) was investigated in Wistar-Kyoto rats.
Title: Physiological regulation of extracellular matrix collagen and elastin in the arterial wall of rats by noradrenergic tone and angiotensin II.
The regulatory effect of melatonin (MLT)cannot be explained by its effect on procollagen gene expression, since neither MLT nor pinealectomy has an influence on alpha1 (I) and alpha1 (III) procollagen mRNA content in the scar.
Title: Melatonin augments expression of the procollagen α1 (I) and α1 (III) genes in the infarcted heart scar of pinealectomized rats.
mRNa expression of Col3a1 increases in kidney and decreases in heart under hyperglycaemic/hyperinsulinaemic conditions.
Title: Epigenetic changes and alteration of Fbn1 and Col3A1 gene expression under hyperglycaemic and hyperinsulinaemic conditions.

Submit: New GeneRIF Correction See all GeneRIFs (19)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH142444 (e-PCR)
- UniSTS:231691

GDB:181238 (e-PCR)
- UniSTS:155206

RH134399 (e-PCR)
- UniSTS:217681

UniSTS:531307 (e-PCR)
- UniSTS:531307

Col3a1 (e-PCR), detects polymorphism
- UniSTS:531307

X57983 (e-PCR)
- UniSTS:125805

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables SMAD binding	ISO Inferred from Sequence Orthology more info
enables extracellular matrix structural constituent	ISO Inferred from Sequence Orthology more info
enables extracellular matrix structural constituent conferring tensile strength	IBA Inferred from Biological aspect of Ancestor more info
enables integrin binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables platelet-derived growth factor binding	ISO Inferred from Sequence Orthology more info
enables protease binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in aorta development	ISO Inferred from Sequence Orthology more info
involved_in aorta smooth muscle tissue morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in basement membrane organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within blood vessel development	ISO Inferred from Sequence Orthology more info
involved_in cartilage development	ISO Inferred from Sequence Orthology more info
involved_in cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to amino acid stimulus	ISO Inferred from Sequence Orthology more info
involved_in cerebral cortex development	ISO Inferred from Sequence Orthology more info
involved_in cerebral cortex development	ISS Inferred from Sequence or Structural Similarity more info
involved_in chondrocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within collagen fibril organization	ISO Inferred from Sequence Orthology more info
involved_in collagen fibril organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within digestive tract development	ISO Inferred from Sequence Orthology more info
involved_in digestive tract development	ISO Inferred from Sequence Orthology more info
involved_in elastic fiber assembly	ISO Inferred from Sequence Orthology more info
involved_in endochondral bone morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in extracellular matrix organization	ISO Inferred from Sequence Orthology more info
involved_in fibroblast proliferation	ISO Inferred from Sequence Orthology more info
involved_in gene expression	ISO Inferred from Sequence Orthology more info
involved_in heart development	ISO Inferred from Sequence Orthology more info
involved_in in utero embryonic development	ISO Inferred from Sequence Orthology more info
involved_in integrin-mediated signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in layer formation in cerebral cortex	ISO Inferred from Sequence Orthology more info
involved_in limb joint morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in lung development	ISO Inferred from Sequence Orthology more info
involved_in multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of immune response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in neuron migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Rho protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Rho protein signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to angiotensin	ISO Inferred from Sequence Orthology more info
involved_in response to cytokine	ISO Inferred from Sequence Orthology more info
involved_in response to mechanical stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to radiation	ISO Inferred from Sequence Orthology more info
involved_in skeletal system development	IEP Inferred from Expression Pattern more info	PubMed
involved_in skin development	ISO Inferred from Sequence Orthology more info
involved_in supramolecular fiber organization	ISO Inferred from Sequence Orthology more info
involved_in tissue homeostasis	ISO Inferred from Sequence Orthology more info
involved_in transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in transforming growth factor beta1 production	ISO Inferred from Sequence Orthology more info
involved_in wound healing	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of collagen trimer	ISO Inferred from Sequence Orthology more info
part_of collagen type III trimer	ISO Inferred from Sequence Orthology more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in collagen-containing extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
located_in collagen-containing extracellular matrix	ISO Inferred from Sequence Orthology more info
located_in extracellular matrix	ISO Inferred from Sequence Orthology more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: collagen alpha-1(III) chain

Names: collagen, type III, alpha 1; procollagen, type III, 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)

NM_032085.1 → NP_114474.1 collagen alpha-1(III) chain precursor

See identical proteins and their annotated locations for NP_114474.1

Status: PROVISIONAL

Source sequence(s)

BC087039

UniProtKB/Swiss-Prot

O70604, P13941, Q5PQT6

UniProtKB/TrEMBL

A6INT2

Related

ENSRNOP00000004956.4, ENSRNOT00000004956.5

Conserved Domains (3) summary

pfam01391
Location:413 → 472

Collagen; Collagen triple helix repeat (20 copies)

pfam00093
Location:33 → 89

VWC; von Willebrand factor type C domain

pfam01410
Location:1230 → 1462

COLFI; Fibrillar collagen C-terminal domain