Col22a1 collagen type XXII alpha 1 chain [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Col22a1provided by RGD
Official Full Name: collagen type XXII alpha 1 chainprovided by RGD
Primary source: RGD:1309081
See related: EnsemblRapid:ENSRNOG00000024824 AllianceGenome:RGD:1309081
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
Summary: Predicted to be an extracellular matrix structural constituent conferring tensile strength. Predicted to be involved in extracellular matrix organization. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Human ortholog(s) of this gene implicated in intracranial aneurysm. Orthologous to human COL22A1 (collagen type XXII alpha 1 chain). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Muscle (RPKM 51.9), Testes (RPKM 43.8) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q34

Exon count:: 72

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (105619776..105857246, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (103730939..103968452, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (113014896..113251165, complement)

Chromosome 7 - NC_086025.1 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?

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General gene information

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Markers

AW532112 (e-PCR)
- UniSTS:245558

AW534465 (e-PCR)
- UniSTS:246585

d7rat133 (e-PCR)
- UniSTS:122318

AU049204 (e-PCR)
- UniSTS:145652

Homology

NCBI Orthologs

Orthologs from OrthoDB

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 extracellular matrix organization	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in basement membrane	IBA Inferred from Biological aspect of Ancestor more info
part_of collagen trimer	IEA Inferred from Electronic Annotation 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(XXII) chain

Names: collagen, type XXII, alpha 1; procollagen, type XXII, alpha 1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086025.1 Reference GRCr8

Range

105619776..105857246 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063264443.1 → XP_063120513.1 collagen alpha-1(XXII) chain isoform X2
XM_039080218.2 → XP_038936146.1 collagen alpha-1(XXII) chain isoform X1

UniProtKB/TrEMBL

F1M897

Related

ENSRNOP00000029936.7, ENSRNOT00000034672.8

Conserved Domains (3) summary

pfam01391
Location:763 → 817

Collagen; Collagen triple helix repeat (20 copies)

cl00057
Location:47 → 228

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

cl22861
Location:248 → 435

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
XM_039080220.2 → XP_038936148.1 collagen alpha-1(XXII) chain isoform X8

Conserved Domains (1) summary

pfam01391
Location:208 → 262

Collagen; Collagen triple helix repeat (20 copies)
XM_063264444.1 → XP_063120514.1 collagen alpha-1(XXII) chain isoform X3
XM_063264445.1 → XP_063120515.1 collagen alpha-1(XXII) chain isoform X4
XM_063264447.1 → XP_063120517.1 collagen alpha-1(XXII) chain isoform X5
XM_039080219.2 → XP_038936147.1 collagen alpha-1(XXII) chain isoform X6

Conserved Domains (3) summary

pfam01391
Location:763 → 817

Collagen; Collagen triple helix repeat (20 copies)

cl00057
Location:47 → 228

vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...

cl22861
Location:248 → 435

LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
XM_063264448.1 → XP_063120518.1 collagen alpha-1(XXII) chain isoform X7