vcanb versican b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vcanbprovided by ZNC
Official Full Name: versican bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-2185
See related: Ensembl:ENSDARG00000009401 AllianceGenome:ZFIN:ZDB-GENE-030131-2185
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: dcan; cspg2b; fb99b07; wu:fb99b07
Summary: Predicted to enable calcium ion binding activity; carbohydrate binding activity; and hyaluronic acid binding activity. Acts upstream of or within intramembranous ossification and skeletal system development. Predicted to be located in several cellular components, including extracellular region; interphotoreceptor matrix; and photoreceptor outer segment. Predicted to be active in extracellular space; perineuronal net; and synapse. Is expressed in several structures, including otic vesicle; paraxial mesoderm; semicircular canal; splanchnocranium; and ventral fin fold. Human ortholog(s) of this gene implicated in intracranial aneurysm. Orthologous to human VCAN (versican). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 10

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	10	NC_007121.7 (43188678..43262960)
105	previous assembly	GRCz10 (GCF_000002035.5)	10	NC_007121.6 (43360298..43434580)

Chromosome 10 - NC_007121.7 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 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 isolation and characterization of a cDNA encoding zebrafish dermacan, a novel member of hyaluronan (HA)-binding proteoglycans, which was termed after its characteristic expression in the zebrafish dermal bones.
Title: Characterization of dermacan, a novel zebrafish lectican gene, expressed in dermal bones.

Submit: New GeneRIF Correction

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 intramembranous ossification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in skeletal system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within skeletal system development	IMP Inferred from Mutant Phenotype more info	PubMed

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: versican core protein

Names: chondroitin sulfate proteoglycan 2b; dermacan

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_214688.1 → NP_999853.1 versican core protein precursor

See identical proteins and their annotated locations for NP_999853.1

Status: PROVISIONAL

Source sequence(s)

AB119257

UniProtKB/TrEMBL

Q75ZI3

Related

ENSDARP00000003376.8, ENSDART00000012522.9

Conserved Domains (8) summary

pfam09528
Location:646 → 1232

Ehrlichia_rpt; Ehrlichia tandem repeat (Ehrlichia_rpt)

cd05901
Location:41 → 152

Ig_Versican; Immunoglobulin (Ig)-like domain of the chondroitin sulfate proteoglycan core protein (CSPG), versican

cd00033
Location:1469 → 1525

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:1342 → 1465

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

smart00410
Location:43 → 148

IG_like; Immunoglobulin like

cd00054
Location:1300 → 1336

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:151 → 245

Link_domain_CSPGs_modules_1_3; 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: ...

cd03520
Location:252 → 345

Link_domain_CSPGs_modules_2_4; 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 ...