Bcan brevican [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Bcanprovided by RGD
Full Name: brevicanprovided by RGD
Primary source: RGD:2194
See related: EnsemblRapid:ENSRNOG00000018798 AllianceGenome:RGD:2194
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: BEHAB; ALPBRE
Summary: Predicted to enable calcium ion binding activity; carbohydrate binding activity; and hyaluronic acid binding activity. Involved in cell-matrix adhesion; neurogenesis; and regulation of neuronal synaptic plasticity. Located in several cellular components, including main axon; perineuronal net; and synaptic membrane. Is active in GABA-ergic synapse; glutamatergic synapse; and perisynaptic extracellular matrix. Used to study high grade glioma. Biomarker of high grade glioma and middle cerebral artery infarction. Orthologous to human BCAN (brevican). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Restricted expression toward (RPKM 233.7) See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (175752333..175765766, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (173454479..173467717, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (187359674..187373133, complement)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

High Brevican expression is associated with glioma tumor aggressiveness.
Title: Brevican knockdown reduces late-stage glioma tumor aggressiveness.
Brevican deposition is elevated in response to progressive gray matter injury, whereas diminished versican expression may be associated with deep cerebral white matter injury.
Title: Versican and brevican are expressed with distinct pathology in neonatal hypoxic-ischemic injury.
TGFbeta may play a role in neuronal plasticity through its regulation of brevican and the activity of the ADAMTSs.
Title: Altered production and proteolytic processing of brevican by transforming growth factor beta in cultured astrocytes.
The expression pattern and cell associations of inhibitory brevican have important implications for axon regeneration across acute and chronic spinal cord scar tissue.
Title: Changes in distribution, cell associations, and protein expression levels of NG2, neurocan, phosphacan, brevican, versican V2, and tenascin-C during acute to chronic maturation of spinal cord scar tissue.
during excitotoxic neurodegeneration the observed ADAMTS-induced cleavage of brevican in the dentate outer molecular layer is closely associated with diminished synaptic density
Title: Association between protease-specific proteolytic cleavage of brevican and synaptic loss in the dentate gyrus of kainate-treated rats.
B/b130 glycovariant of BEHAB/brevican is up-regulated during rat brain development and in a rat model of invasive glioma
Title: A novel membrane-associated glycovariant of BEHAB/brevican is up-regulated during rat brain development and in a rat model of invasive glioma.
Brevican is primarily synthesized by co-cultured GFAP-positive astrocytes and co-assembles with its interaction partners in perineuronal net-like structures on neuronal somata & neurites; axon initial segments are strongly covered by a dense brevican coat
Title: Brevican-containing perineuronal nets of extracellular matrix in dissociated hippocampal primary cultures.
In a rodent model of neonatal hypoxia-ischemia, a marked decline is found in the expression of brevican, whose expression is correlated with oligodendrocyte survival, growth, and maturation.
Title: The effect of hypoxic-ischemic brain injury in perinatal rats on the abundance and proteolysis of brevican and NG2.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:224394 (e-PCR)
- UniSTS:224394

RH138503 (e-PCR)
- UniSTS:220590

Gene Ontology Provided by RGD

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
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-matrix adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in gliogenesis	IEP Inferred from Expression Pattern more info	PubMed
involved_in hippocampus development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within hippocampus development	ISO Inferred from Sequence Orthology more info
involved_in neuron projection extension	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of neuronal synaptic plasticity	IEP Inferred from Expression Pattern more info	PubMed
involved_in skeletal system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in synapse maturation	IEA Inferred from Electronic Annotation more info
involved_in synapse maturation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axon initial segment	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular matrix	ISO Inferred from Sequence Orthology 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
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in node of Ranvier	IDA Inferred from Direct Assay more info	PubMed
is_active_in perineuronal net	IBA Inferred from Biological aspect of Ancestor more info
located_in perineuronal net	IDA Inferred from Direct Assay more info	PubMed
located_in perineuronal net	IEA Inferred from Electronic Annotation more info
located_in perineuronal net	ISO Inferred from Sequence Orthology more info
is_active_in perisynaptic extracellular matrix	IDA Inferred from Direct Assay more info	PubMed
located_in side of membrane	IEA Inferred from Electronic Annotation more info
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
located_in synaptic membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: brevican core protein

Names: brain-enriched hyaluronan-binding protein; brevican (brain specific proteoglycan in the aggrecan family); brevican core protein-like

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_001033665.1 → NP_001028837.1 brevican core protein isoform 1 precursor

See identical proteins and their annotated locations for NP_001028837.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).

Source sequence(s)

CB577797, CB784255, CB810773, U37142, Z28366

UniProtKB/Swiss-Prot

P55068, Q62860, Q63040, Q63513

UniProtKB/TrEMBL

A6J642, G3V8G4

Related

ENSRNOP00000025496.4, ENSRNOT00000025496.8

Conserved Domains (8) summary

cd00033
Location:791 → 848

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

cd03517
Location:156 → 250

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:257 → 352

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:626 → 655

EGF; EGF-like domain

cd00096
Location:44 → 46

Ig; Ig strand A' [structural motif]

NF033913
Location:369 → 629

fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

cl02432
Location:664 → 787

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:40 → 158

Ig; Immunoglobulin domain
NM_012916.2 → NP_037048.2 brevican core protein isoform 2 precursor

See identical proteins and their annotated locations for NP_037048.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks multiple exons in the 3' coding region and its 3' terminal exon extends past a splice site that is used in variant 1. The resulting protein (isoform 2) is shorter but has the same N-terminus compared to isoform 1.

Source sequence(s)

AI535159, CB577797, JAXUCZ010000002, X86406, Z28366

UniProtKB/TrEMBL

A6J643

Conserved Domains (4) summary

smart00410
Location:43 → 153

IG_like; Immunoglobulin like

cd03517
Location:156 → 250

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:257 → 352

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 ...

cl11960
Location:48 → 157

Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086020.1 Reference GRCr8

Range

175752333..175765766 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039101790.2 → XP_038957718.1 brevican core protein isoform X1

UniProtKB/Swiss-Prot

P55068, Q62860, Q63040, Q63513

Conserved Domains (8) summary

cd00033
Location:791 → 848

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

cd03517
Location:156 → 250

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:257 → 352

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:626 → 655

EGF; EGF-like domain

cd00096
Location:44 → 46

Ig; Ig strand A' [structural motif]

NF033913
Location:369 → 629

fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

cl02432
Location:664 → 787

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:40 → 158

Ig; Immunoglobulin domain
XM_039101788.2 → XP_038957716.1 brevican core protein isoform X1

UniProtKB/Swiss-Prot

P55068, Q62860, Q63040, Q63513

Conserved Domains (8) summary

cd00033
Location:791 → 848

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

cd03517
Location:156 → 250

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:257 → 352

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:626 → 655

EGF; EGF-like domain

cd00096
Location:44 → 46

Ig; Ig strand A' [structural motif]

NF033913
Location:369 → 629

fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

cl02432
Location:664 → 787

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:40 → 158

Ig; Immunoglobulin domain
XM_039101787.2 → XP_038957715.1 brevican core protein isoform X1

UniProtKB/Swiss-Prot

P55068, Q62860, Q63040, Q63513

Conserved Domains (8) summary

cd00033
Location:791 → 848

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

cd03517
Location:156 → 250

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:257 → 352

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:626 → 655

EGF; EGF-like domain

cd00096
Location:44 → 46

Ig; Ig strand A' [structural motif]

NF033913
Location:369 → 629

fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

cl02432
Location:664 → 787

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:40 → 158

Ig; Immunoglobulin domain
XM_063281348.1 → XP_063137418.1 brevican core protein isoform X4

UniProtKB/TrEMBL

A6J642, G3V8G4
XM_063281346.1 → XP_063137416.1 brevican core protein isoform X4

UniProtKB/TrEMBL

A6J642, G3V8G4
XM_063281344.1 → XP_063137414.1 brevican core protein isoform X4

UniProtKB/TrEMBL

A6J642, G3V8G4
XM_063281343.1 → XP_063137413.1 brevican core protein isoform X1
XM_039101786.2 → XP_038957714.2 brevican core protein isoform X2
XM_063281347.1 → XP_063137417.1 brevican core protein isoform X4

UniProtKB/TrEMBL

A6J642, G3V8G4
XM_039101784.2 → XP_038957712.1 brevican core protein isoform X1

UniProtKB/Swiss-Prot

P55068, Q62860, Q63040, Q63513

Conserved Domains (8) summary

cd00033
Location:791 → 848

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

cd03517
Location:156 → 250

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:257 → 352

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:626 → 655

EGF; EGF-like domain

cd00096
Location:44 → 46

Ig; Ig strand A' [structural motif]

NF033913
Location:369 → 629

fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

cl02432
Location:664 → 787

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:40 → 158

Ig; Immunoglobulin domain
XM_039101789.2 → XP_038957717.1 brevican core protein isoform X1

UniProtKB/Swiss-Prot

P55068, Q62860, Q63040, Q63513

Conserved Domains (8) summary

cd00033
Location:791 → 848

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

cd03517
Location:156 → 250

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:257 → 352

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:626 → 655

EGF; EGF-like domain

cd00096
Location:44 → 46

Ig; Ig strand A' [structural motif]

NF033913
Location:369 → 629

fibronec_FbpA; LPXTG-anchored fibronectin-binding protein FbpA

cl02432
Location:664 → 787

CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain

cl11960
Location:40 → 158

Ig; Immunoglobulin domain
XM_063281349.1 → XP_063137419.1 brevican core protein isoform X3
XM_063281342.1 → XP_063137412.1 brevican core protein isoform X3