Col1a2 collagen type I alpha 2 chain [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Col1a2provided by RGD
Full Name: collagen type I alpha 2 chainprovided by RGD
Primary source: RGD:621351
See related: EnsemblRapid:ENSRNOG00000011292 AllianceGenome:RGD:621351
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 identical protein binding activity; platelet-derived growth factor binding activity; and protease binding activity. Predicted to be an extracellular matrix structural constituent conferring tensile strength. Involved in several processes, including cellular response to retinoic acid; cellular response to thyroid hormone stimulus; and response to norepinephrine. Predicted to be located in extracellular region. Predicted to be part of collagen type I trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Biomarker of hypothyroidism; muscular atrophy; pulmonary fibrosis; and ureteral obstruction. Human ortholog(s) of this gene implicated in Ehlers-Danlos syndrome (multiple); heart valve disease; intracranial aneurysm; osteogenesis imperfecta (multiple); and osteoporosis. Orthologous to human COL1A2 (collagen type I alpha 2 chain). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Muscle (RPKM 4555.8), Uterus (RPKM 2695.4) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q21

Exon count:: 52

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (33518557..33553484)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (32563938..32598868)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (31534225..31569152)

Chromosome 4 - NC_086022.1 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 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?

Nitration of cAMP-Response Element Binding Protein Participates in Myocardial Infarction-Induced Myocardial Fibrosis via Accelerating Transcription of Col1a2 and Cxcl12.
Title: Nitration of cAMP-Response Element Binding Protein Participates in Myocardial Infarction-Induced Myocardial Fibrosis via Accelerating Transcription of Col1a2 and Cxcl12.
Flouride affected collagen I arrangement and produced ultrastructural changes in bone tissue. Meanwhile, the mRNA expression of COL1A1 and COL1A2 were reduced and the COL I protein levels decreased in the fluorosis group.
Title: Effects of fluoride on the ultrastructure and expression of Type I collagen in rat hard tissue.
Resveratrol effectively inhibits collagen I synthesis in IGF-1-stimulated colonic fibroblasts, partly by inhibiting IGF-1R activation, and SIRT1 is also responsible for the process.
Title: Resveratrol inhibits collagen I synthesis by suppressing IGF-1R activation in intestinal fibroblasts.
The conformational free-energy landscape has been calculated for the unfolding regions of type-I collagen alpha2 chain within the context of the microfibril
Title: Insight into the degradation of type-I collagen fibrils by MMP-8.
MRTF-A is an important regulator of collagen synthesis in lung fibroblasts and exhibits a dependence on both SRF and Sp1 function to enhance collagen expression
Title: Myocardin-related transcription factor-A complexes activate type I collagen expression in lung fibroblasts.
MAA, a proteolytic cleavage fragment of type I collagen alpha2 chain, is an autoantigen in autoimmune anterior uveitis.
Title: Proteolytic cleavage of type I collagen generates an autoantigen in autoimmune uveitis.
These data support a novel and previously unknown role for scleraxis in the regulation of collagen gene expression in the heart, including in post-infarct scar formation.
Title: The basic helix-loop-helix transcription factor scleraxis regulates fibroblast collagen synthesis.
Odontoblasts in pulp horn, in particular, showed moderate expression of type I procollagen after dentinogenesis.
Title: Synthesis and intracellular transportation of type I procollagen during functional differentiation of odontoblasts.
Transcription of COL1A2 in the soleus muscle initially decreases in response to unloading through an increase in TNF-alpha production; thereafter, it returns toward normal level through the activated TGF-beta/Smad pathway.
Title: TGF-beta1 and TNF-alpha are involved in the transcription of type I collagen alpha2 gene in soleus muscle atrophied by mechanical unloading.
transcription repression by interferon gamma is mediated by RFX5 complex
Title: Interferon gamma repression of collagen (COL1A2) transcription is mediated by the RFX5 complex.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Col1a2 (e-PCR), detects polymorphism
- UniSTS:516099

RH133324 (e-PCR)
- UniSTS:216607

Col1a2 (e-PCR), detects polymorphism
- UniSTS:265065

d4rat151 (e-PCR)
- UniSTS:121970

AA819207 (e-PCR)
- UniSTS:261556

RH132451 (e-PCR)
- UniSTS:215734

GDB:180350 (e-PCR)
- UniSTS:155082

AI179432 (e-PCR)
- UniSTS:250582

GDB:177260 (e-PCR)
- UniSTS:154850

Gene Ontology Provided by RGD

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

Process	Evidence Code	Pubs
involved_in Rho protein signal transduction	IEA Inferred from Electronic Annotation more info
involved_in Rho protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in blood vessel development	IEA Inferred from Electronic Annotation more info
involved_in blood vessel development	ISO Inferred from Sequence Orthology more info
involved_in bone mineralization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within bone mineralization	ISO Inferred from Sequence Orthology more info
involved_in cellular response to aldehyde	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to amino acid stimulus	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to amino acid stimulus	ISO Inferred from Sequence Orthology more info
involved_in cellular response to retinoic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to thyroid hormone stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in collagen fibril organization	IEA Inferred from Electronic Annotation more info
involved_in collagen fibril organization	ISO Inferred from Sequence Orthology more info
involved_in collagen metabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within collagen metabolic process	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within extracellular matrix assembly	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein heterotrimerization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein heterotrimerization	ISO Inferred from Sequence Orthology more info
involved_in regulation of blood pressure	IEA Inferred from Electronic Annotation more info
involved_in regulation of blood pressure	ISO Inferred from Sequence Orthology more info
involved_in response to norepinephrine	IEP Inferred from Expression Pattern more info	PubMed
involved_in skeletal system development	IEA Inferred from Electronic Annotation more info
involved_in skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in skin morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in skin morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in transforming growth factor beta receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in transforming growth factor beta receptor signaling pathway	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of collagen trimer	IEA Inferred from Electronic Annotation more info
part_of collagen trimer	ISO Inferred from Sequence Orthology more info
part_of collagen type I trimer	IBA Inferred from Biological aspect of Ancestor more info
part_of collagen type I trimer	IEA Inferred from Electronic Annotation more info
part_of collagen type I 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	ISO Inferred from Sequence Orthology more info
located_in extracellular region	TAS Traceable Author Statement more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: collagen alpha-2(I) chain

Names: alpha-2 type I collagen; collagen, type I, alpha 2; procollagen, type I, alpha 2

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_053356.2 → NP_445808.2 collagen alpha-2(I) chain precursor

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

A0A0G2KAN1, F1LS40

Related

ENSRNOP00000016423.7, ENSRNOT00000016423.8

Conserved Domains (4) summary

PRK07764
Location:322 → 719

PRK07764; DNA polymerase III subunits gamma and tau; Validated

pfam09606
Location:26 → 436

Med15; ARC105 or Med15 subunit of Mediator complex non-fungal

pfam01391
Location:700 → 756

Collagen; Collagen triple helix repeat (20 copies)

pfam01410
Location:1137 → 1371

COLFI; Fibrillar collagen C-terminal domain