col8a1a collagen, type VIII, alpha 1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: col8a1aprovided by ZNC
Official Full Name: collagen, type VIII, alpha 1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-070912-274
See related: Ensembl:ENSDARG00000077403 AllianceGenome:ZFIN:ZDB-GENE-070912-274
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: col8a1; Col8A1.1; wu:fb18b08; si:ch211-283e2.6
Summary: Predicted to be an extracellular matrix structural constituent conferring tensile strength. Acts upstream of or within head development and notochord formation. Predicted to be located in extracellular region. Predicted to be part of collagen trimer. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in several structures, including epidermis; hypochord; notochord; prechordal plate; and splanchnocranium. Orthologous to human COL8A1 (collagen type VIII alpha 1 chain). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 9

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	9	NC_007120.7 (30090739..30102779)
105	previous assembly	GRCz10 (GCF_000002035.5)	9	NC_007120.6 (30279993..30292033)

Chromosome 9 - NC_007120.7 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?

col8a1a has a role in zebrafish embryogenesis; its absence results in congenital vertebral malformations
Title: Loss of col8a1a function during zebrafish embryogenesis results in congenital vertebral malformations.
human mutations in COL8A1 may cause structural birth defects
Title: Essential role for the alpha 1 chain of type VIII collagen in zebrafish notochord formation.

Submit: New GeneRIF Correction

General gene information

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Markers

fb18b08.x1 (e-PCR)
- UniSTS:190233

fb18b08.x1 (e-PCR)
- UniSTS:190234

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 head development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed

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
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 VIII, alpha 1a

Names: collagen type VIII alpha 1; gul; gulliver; lev; leviathan

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_001142374.1 → NP_001135846.1 collagen, type VIII, alpha 1a precursor

See identical proteins and their annotated locations for NP_001135846.1

Status: PROVISIONAL

Source sequence(s)

EU781032

UniProtKB/TrEMBL

B7SW26

Related

ENSDARP00000093755.3, ENSDART00000102981.4

Conserved Domains (2) summary

smart00110
Location:581 → 711

C1Q; Complement component C1q domain

pfam01391
Location:320 → 376

Collagen; Collagen triple helix repeat (20 copies)