col9a3 collagen, type IX, alpha 3 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: col9a3provided by ZNC
Official Full Name: collagen, type IX, alpha 3provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-9799
See related: Ensembl:ENSDARG00000037845 AllianceGenome:ZFIN:ZDB-GENE-030131-9799
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: cb367; sb:cb367; wu:fa04f01; si:ch73-162j3.1
Summary: Predicted to be an extracellular matrix structural constituent. Predicted to be involved in extracellular matrix organization and skeletal system development. Predicted to be active in cytoplasm; extracellular matrix; and extracellular space. Is expressed in several structures, including head mesenchyme; hypochord; mesoderm; notochord; and pectoral fin. Human ortholog(s) of this gene implicated in multiple epiphyseal dysplasia 3 and osteochondrodysplasia. Orthologous to human COL9A3 (collagen type IX alpha 3 chain). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 23

Exon count:: 32

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (495514..524780, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (482721..511987, complement)

Chromosome 23 - NC_007134.7 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: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

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

fc73c02.y1 (e-PCR)
- UniSTS:194387

AA497262 (e-PCR)
- UniSTS:206939

fc03f09.x1 (e-PCR)
- UniSTS:192129

fc03f09.x1 (e-PCR)
- UniSTS:192130

Gene Ontology Provided by ZFIN

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
part_of collagen trimer	IEA Inferred from Electronic Annotation more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor 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-3(IX) chain

Names: alpha 3 type IX collagen

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_001305573.1 → NP_001292502.1 collagen alpha-3(IX) chain precursor

Status: VALIDATED

Source sequence(s)

BX323461

UniProtKB/TrEMBL

A0A8M1P1U1, F1R1F1

Related

ENSDARP00000055138.5, ENSDART00000055139.6

Conserved Domains (1) summary

pfam01391
Location:448 → 505

Collagen; Collagen triple helix repeat (20 copies)