Col10a1 collagen type X alpha 1 chain [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Col10a1provided by RGD
Official Full Name: collagen type X alpha 1 chainprovided by RGD
Primary source: RGD:2371
See related: EnsemblRapid:ENSRNOG00000051399 AllianceGenome:RGD:2371
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
Summary: Involved in cartilage development and endochondral ossification. Located in collagen-containing extracellular matrix. Biomarker of degenerative disc disease. Human ortholog(s) of this gene implicated in Schmid metaphyseal chondrodysplasia and osteochondrodysplasia. Orthologous to human COL10A1 (collagen type X alpha 1 chain). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Thymus (RPKM 62.6), Spleen (RPKM 53.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20q12

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (39737536..39744518)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (38183103..38189488)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (41180295..41190664)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

study found gene transcripts of type II and X collagen were most abundant at day 10 postnatally in the spheno-occipital synchondrosis
Title: Development dependent collagen gene expression in the rat cranial base growth plate.
During pubertal growth spurt, two-week static compression reduced caudal vertebrae growth rates; this mechanical growth modulation occurred with decreased type II and X collagen proteins in the growth plate.
Title: Effects of in vivo static compressive loading on aggrecan and type II and X collagens in the rat growth plate extracellular matrix.

Submit: New GeneRIF Correction

General gene information

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Markers

RH139629 (e-PCR)
- UniSTS:221713

RH94871 (e-PCR)
- UniSTS:120117

Col10a1 (e-PCR), detects polymorphism
- UniSTS:265064

Col10a1 (e-PCR), detects polymorphism
- UniSTS:502678

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables extracellular matrix structural constituent conferring tensile strength	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cartilage development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in endochondral ossification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in extracellular matrix organization	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cell cortex	ISO Inferred from Sequence Orthology more info
part_of collagen trimer	ISO Inferred from Sequence Orthology more info
part_of collagen type X 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

General protein information

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Preferred Names: collagen alpha-1(X) chain

Names: collagen, type X, alpha 1; procollagen, type X, 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.