vcana versican a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vcanaprovided by ZNC
Official Full Name: versican aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-011023-1
See related: Ensembl:ENSDARG00000103515 AllianceGenome:ZFIN:ZDB-GENE-011023-1
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: br146; cspg2; cspg2a; sb:cb63; versican
Summary: Predicted to enable calcium ion binding activity; carbohydrate binding activity; and hyaluronic acid binding activity. Acts upstream of or within endocardial cushion morphogenesis; pronephric glomerulus morphogenesis; and regulation of glomerular filtration. Predicted to be located in extracellular region. Predicted to be active in extracellular matrix. Is expressed in several structures, including anterior neural keel; mesoderm; otic vesicle; pericardial region; and semicircular canal. Human ortholog(s) of this gene implicated in intracranial aneurysm. Orthologous to human VCAN (versican). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: all
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Genomic context

Location:: chromosome: 5

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (46422352..46487254)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (45822283..45887103)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages 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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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables hyaluronic acid binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within endocardial cushion morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in glial cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of neuroblast proliferation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within pronephric glomerulus morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of glomerular filtration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in skeletal system development	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
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
located_in interphotoreceptor matrix	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in perineuronal net	IBA Inferred from Biological aspect of Ancestor more info
located_in photoreceptor outer segment	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: chondroitin sulfate proteoglycan 2; versican a

Names: chondroitin sulfate proteoglycan 2a

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_001326557.1 → NP_001313486.1 versican a

Status: VALIDATED

Source sequence(s)

BX322628, BX465199, BX530095

UniProtKB/TrEMBL

A0A2R8Q3K1, A0A8M1P832

Related

ENSDARP00000147274.1, ENSDART00000186511.1

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007116.7 Reference GRCz11 Primary Assembly

Range

46422352..46487254

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021475988.1 → XP_021331663.1 chondroitin sulfate proteoglycan 2 isoform X1

UniProtKB/TrEMBL

A0A8M9PX21

Conserved Domains (8) summary

cd00033
Location:8825 → 8881

CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system

cd03588
Location:8698 → 8821

CLECT_CSPGs; C-type lectin-like domain (CTLD) of the type found in chondroitin sulfate proteoglycan core proteins

cd00054
Location:8656 → 8692

EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...

cd03517
Location:147 → 241

Link_domain_CSPGs_modules_1_3; this extracellular link domain is found in the first and third link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan. In addition, it is found in the first link module of three other CSPGs: versican, neurocan, and brevican. ...

cd03520
Location:249 → 343

Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The link domain is a hyaluronan ...

pfam00008
Location:8622 → 8652

EGF; EGF-like domain

cl11960
Location:36 → 148

Ig; Immunoglobulin domain

cl25496
Location:5897 → 6290

Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)