col10a1a collagen, type X, alpha 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: col10a1aprovided by ZNC
Official Full Name: collagen, type X, alpha 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-8373
See related: Ensembl:ENSDARG00000054753 AllianceGenome:ZFIN:ZDB-GENE-030131-8373
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: col10a1; fa66d11; wu:fa66d11; wu:fb10c08
Summary: Predicted to be an extracellular matrix structural constituent conferring tensile strength. Acts upstream of or within fin regeneration. Predicted to be located in extracellular region. Predicted to be part of collagen type IX trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including fin; mesenchymal cell; osteoblast; osteoprogenitor cell; and skeletal system. 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, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 17

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	17	NC_007128.7 (15542083..15546851, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	17	NC_007128.6 (15534150..15538918, complement)

Chromosome 17 - NC_007128.7 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?

The Osteoblast Transcriptome in Developing Zebrafish Reveals Key Roles for Extracellular Matrix Proteins Col10a1a and Fbln1 in Skeletal Development and Homeostasis.
Title: The Osteoblast Transcriptome in Developing Zebrafish Reveals Key Roles for Extracellular Matrix Proteins Col10a1a and Fbln1 in Skeletal Development and Homeostasis.
functional analysis of the zebrafish (Danio rerio) collagen Xalpha1 gene (colXalpha1) promoter with the identification of a region responsive to two isoforms of the runt domain transcription factor runx2
Title: Identification of a promoter element within the zebrafish colXalpha1 gene responsive to runx2 isoforms Osf2/Cbfa1 and til-1 but not to pebp2alphaA2.

Submit: New GeneRIF Correction

General gene information

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Markers

aa658811 (e-PCR)
- UniSTS:186925

fb10c08.x1 (e-PCR)
- UniSTS:202805

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
acts_upstream_of_or_within fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed

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
located_in extracellular region	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, type X, alpha 1a

Names: collagen, 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.

mRNA and Protein(s)

NM_001083827.1 → NP_001077296.1 collagen, type X, alpha 1a precursor

See identical proteins and their annotated locations for NP_001077296.1

Status: PROVISIONAL

Source sequence(s)

AY836242

UniProtKB/TrEMBL

A2RQR3

Related

ENSDARP00000085454.4, ENSDART00000091021.5

Conserved Domains (2) summary

smart00110
Location:524 → 652

C1Q; Complement component C1q domain

pfam01391
Location:287 → 346

Collagen; Collagen triple helix repeat (20 copies)