BCAN Gene (Protein Coding)

Brevican

GC01P156641
GIFtS:
41
This gene encodes a member of the lectican family of chondroitin sulfate proteoglycans that is specifically expressed in the central nervous system. This protein is developmentally regulated and may function in the formation of the brain extracellular matrix. This protein is highly expressed in gliomas and may promote the growth and cell motility of brain tumor cells. Alternate... See more...

Aliases for BCAN Gene

Aliases for BCAN Gene

  • Brevican 2 3 5
  • Chondroitin Sulfate Proteoglycan 7 2 3 4
  • BEHAB 2 3 4
  • CSPG7 2 3 4
  • Brain-Enriched Hyaluronan-Binding Protein 3 4
  • Brevican Core Protein 3 4
  • Chondroitin Sulfate Proteoglycan BEHAB 3
  • Brevican Proteoglycan 2
  • MGC13038 2
  • BCAN 5

External Ids for BCAN Gene

Previous GeneCards Identifiers for BCAN Gene

  • GC01P154481
  • GC01P152377
  • GC01P153390
  • GC01P153828
  • GC01P153424
  • GC01P154878
  • GC01P156611
  • GC01P127969

Summaries for BCAN Gene

Entrez Gene Summary for BCAN Gene

  • This gene encodes a member of the lectican family of chondroitin sulfate proteoglycans that is specifically expressed in the central nervous system. This protein is developmentally regulated and may function in the formation of the brain extracellular matrix. This protein is highly expressed in gliomas and may promote the growth and cell motility of brain tumor cells. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Sep 2011]

GeneCards Summary for BCAN Gene

BCAN (Brevican) is a Protein Coding gene. Diseases associated with BCAN include Low-Grade Astrocytoma and Winchester Syndrome. Among its related pathways are Chondroitin sulfate/dermatan sulfate metabolism and Degradation of the extracellular matrix. Gene Ontology (GO) annotations related to this gene include carbohydrate binding and hyaluronic acid binding. An important paralog of this gene is ACAN.

UniProtKB/Swiss-Prot Summary for BCAN Gene

  • May play a role in the terminally differentiating and the adult nervous system during postnatal development. Could stabilize interactions between hyaluronan (HA) and brain proteoglycans.

Gene Wiki entry for BCAN Gene

Additional gene information for BCAN Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for BCAN Gene

Genomics for BCAN Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for BCAN Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around BCAN on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for BCAN

Top Transcription factor binding sites by QIAGEN in the BCAN gene promoter:
  • AhR
  • Arnt
  • NRSF form 1
  • NRSF form 2
  • p300
  • p53
  • STAT5A
  • YY1

Genomic Locations for BCAN Gene

Latest Assembly
chr1:156,641,390-156,659,532
(GRCh38/hg38)
Size:
18,143 bases
Orientation:
Plus strand

Previous Assembly
chr1:156,611,909-156,629,320
(GRCh37/hg19 by Entrez Gene)
Size:
17,412 bases
Orientation:
Plus strand

chr1:156,611,182-156,629,324
(GRCh37/hg19 by Ensembl)
Size:
18,143 bases
Orientation:
Plus strand

Genomic View for BCAN Gene

Genes around BCAN on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
BCAN Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for BCAN Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for BCAN Gene

Proteins for BCAN Gene

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  • Protein details for BCAN Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96GW7-PGCB_HUMAN
    Recommended name:
    Brevican core protein
    Protein Accession:
    Q96GW7
    Secondary Accessions:
    • D3DVC2
    • Q5SZ10
    • Q5T3I5
    • Q8TBB9
    • Q9HBK1
    • Q9HBK4

    Protein attributes for BCAN Gene

    Size:
    911 amino acids
    Molecular mass:
    99118 Da
    Quaternary structure:
    • Interacts with TNR.

    Alternative splice isoforms for BCAN Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for BCAN Gene

Protein Expression for BCAN Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for BCAN Gene

  • Contains mostly chondroitin sulfate (By similarity). O-glycosylated with a core 1 or possibly core 8 glycan.
  • Glycosylation at Asn130, Asn337, Thr540, Thr542, Ser905, and Ser906
  • Modification sites at PhosphoSitePlus

Other Protein References for BCAN Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for BCAN Gene

Domains & Families for BCAN Gene

Gene Families for BCAN Gene

HGNC:
Human Protein Atlas (HPA):
  • Plasma proteins
  • Predicted secreted proteins

Protein Domains for BCAN Gene

InterPro:
Blocks:
  • Immunoglobulin V-set
  • Sushi domain/SCR domain/CCP module
  • Link domain
  • Type II antifreeze protein signature

Suggested Antigen Peptide Sequences for BCAN Gene

GenScript: Design optimal peptide antigens:
  • Chondroitin sulfate proteoglycan 7 (PGCB_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96GW7

UniProtKB/Swiss-Prot:

PGCB_HUMAN :
  • Belongs to the aggrecan/versican proteoglycan family.
Family:
  • Belongs to the aggrecan/versican proteoglycan family.
genes like me logo Genes that share domains with BCAN: view

Function for BCAN Gene

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  4. Inhibitory RNAs for research
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  6. Cell Lines for research

Molecular function for BCAN Gene

UniProtKB/Swiss-Prot Function:
May play a role in the terminally differentiating and the adult nervous system during postnatal development. Could stabilize interactions between hyaluronan (HA) and brain proteoglycans.

Phenotypes From GWAS Catalog for BCAN Gene

Gene Ontology (GO) - Molecular Function for BCAN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 32814053
GO:0005540 hyaluronic acid binding IEA --
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with BCAN: view
genes like me logo Genes that share phenotypes with BCAN: view

Animal Models for BCAN Gene

MGI Knock Outs for BCAN:

Animal Models for research

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for BCAN

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for BCAN Gene

Localization for BCAN Gene

Subcellular locations from UniProtKB/Swiss-Prot for BCAN Gene

[Isoform 1]: Secreted, extracellular space, extracellular matrix.
[Isoform 2]: Membrane. Lipid-anchor, GPI-anchor.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for BCAN gene
Compartment Confidence
extracellular 5
lysosome 4
golgi apparatus 4
plasma membrane 3
nucleus 3
cytoskeleton 2
mitochondrion 2
cytosol 2
endoplasmic reticulum 1
endosome 1

Gene Ontology (GO) - Cellular Components for BCAN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005796 Golgi lumen TAS --
GO:0016020 membrane IEA --
GO:0031012 extracellular matrix IBA 21873635
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with BCAN: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for BCAN Gene

Pathways & Interactions for BCAN Gene

genes like me logo Genes that share pathways with BCAN: view

Pathways by source for BCAN Gene

1 BioSystems pathway for BCAN Gene
1 GeneGo (Thomson Reuters) pathway for BCAN Gene
  • Cell adhesion_Cell-matrix glycoconjugates

Gene Ontology (GO) - Biological Process for BCAN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001501 skeletal system development IBA 21873635
GO:0007155 cell adhesion IEA --
GO:0007417 central nervous system development IBA 21873635
GO:0021766 hippocampus development IEA --
GO:0030198 extracellular matrix organization TAS --
genes like me logo Genes that share ontologies with BCAN: view

No data available for SIGNOR curated interactions for BCAN Gene

Drugs & Compounds for BCAN Gene

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  1. Drug products for research

(1) Drugs for BCAN Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Hyaluronic acid Approved, Vet_approved Pharma 827
genes like me logo Genes that share compounds with BCAN: view

Transcripts for BCAN Gene

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mRNA/cDNA for BCAN Gene

2 REFSEQ mRNAs :
19 NCBI additional mRNA sequence :
8 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for BCAN

Alternative Splicing Database (ASD) splice patterns (SP) for BCAN Gene

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c · 4d ^ 5 ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13a · 13b ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^
SP1: - - -
SP2: -
SP3: -
SP4: - -
SP5: -
SP6: -
SP7:
SP8: -
SP9:
SP10: - - - - - - - - -
SP11: - - - -
SP12:

ExUns: 18a · 18b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:

Relevant External Links for BCAN Gene

GeneLoc Exon Structure for
BCAN

Expression for BCAN Gene

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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for BCAN Gene

mRNA expression in normal human tissues for BCAN Gene
mRNA expression by BioGPS for BCAN GenemRNA expression by GTEx for BCAN Gene

mRNA differential expression in normal tissues according to GTEx for BCAN Gene

This gene is overexpressed in Brain - Amygdala (x7.3), Brain - Caudate (basal ganglia) (x5.2), Brain - Hippocampus (x5.2), Brain - Putamen (basal ganglia) (x5.1), Brain - Nucleus accumbens (basal ganglia) (x5.0), Brain - Anterior cingulate cortex (BA24) (x4.1), and Brain - Substantia nigra (x4.0).

Protein differential expression in normal tissues from HIPED for BCAN Gene

This gene is overexpressed in Frontal cortex (30.7), Brain (19.6), and Cerebrospinal fluid (8.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for BCAN Gene



Protein tissue co-expression partners for BCAN Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for BCAN

SOURCE GeneReport for Unigene cluster for BCAN Gene:

Hs.516904

mRNA Expression by UniProt/SwissProt for BCAN Gene:

Q96GW7-PGCB_HUMAN
Tissue specificity: Expressed in the retina, specifically in the inner nuclear layer, inner plexiform layer and ganglion cell layer (at protein level).

Evidence on tissue expression from TISSUES for BCAN Gene

  • Nervous system(5)
  • Skin(2.2)
  • Eye(2)
genes like me logo Genes that share expression patterns with BCAN: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for BCAN Gene

Orthologs for BCAN Gene

This gene was present in the common ancestor of animals.

Orthologs for BCAN Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia BCAN 29 30
  • 99.51 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia BCAN 29 30
  • 89.27 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia BCAN 29 30
  • 87.78 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Bcan 29
  • 83.49 (n)
Mouse
(Mus musculus)
 Mammalia Bcan 29 16 30
  • 83.37 (n)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia BCAN 30
  • 54 (a)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia -- 30
  • 52 (a)
 ManyToMany
Chicken
(Gallus gallus)
 Aves BCAN 29 30
  • 70.81 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia BCAN 30
  • 38 (a)
 OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
 Amphibia LOC100486298 29
  • 58.77 (n)
Zebrafish
(Danio rerio)
 Actinopterygii bcan 29 30
  • 59.01 (n)
 OneToOne
Worm
(Caenorhabditis elegans)
 Secernentea clec-149 30
  • 23 (a)
 OneToMany
Species where no ortholog for BCAN was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for BCAN Gene

ENSEMBL:
Gene Tree for BCAN (if available)
TreeFam:
Gene Tree for BCAN (if available)
Aminode:
Evolutionary constrained regions (ECRs) for BCAN: view image
Alliance of Genome Resources:
Additional Orthologs for BCAN

Paralogs for BCAN Gene

Paralogs for BCAN Gene

(9) SIMAP similar genes for BCAN Gene using alignment to 7 proteins:

  • PGCB_HUMAN
  • L8E931_HUMAN
  • Q5T3I6_HUMAN
  • Q5T3I7_HUMAN
  • Q5T3I8_HUMAN
  • V9GXZ8_HUMAN
  • V9GY88_HUMAN
genes like me logo Genes that share paralogs with BCAN: view

Variants for BCAN Gene

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Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for BCAN Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs115373136 Benign: not specified 156,647,022(+) C/G
NM_021948.5(BCAN):c.313C>G (p.Arg105Gly) 		MISSENSE
rs200282065 Uncertain Significance: Severe Myopia 156,658,623(+) C/T
NM_021948.5(BCAN):c.2518C>T (p.Leu840Phe) 		MISSENSE
rs202001625 Likely Benign: not provided 156,659,093(+) G/A
NM_021948.5(BCAN):c.2695G>A (p.Ala899Thr) 		MISSENSE
rs41267397 Likely Benign: not provided 156,657,004(+) G/T
NM_021948.5(BCAN):c.2117G>T (p.Arg706Leu) 		MISSENSE
rs548144047 Benign: not provided 156,656,292(+) C/T
NM_021948.5(BCAN):c.1953C>T (p.Val651=) 		SYNONYMOUS

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for BCAN Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for BCAN Gene

Variant ID Type Subtype PubMed ID
nsv521401 CNV loss 19592680
nsv521552 CNV loss 19592680
nsv523181 CNV loss 19592680

Variation tolerance for BCAN Gene

Residual Variation Intolerance Score: 15.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.82; 86.88% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for BCAN Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
BCAN
Leiden Open Variation Database (LOVD)
BCAN

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for BCAN Gene

Disorders for BCAN Gene

MalaCards: The human disease database

(2) MalaCards diseases for BCAN Gene - From: COP and GCD

Disorder Aliases PubMed IDs
low-grade astrocytoma
winchester syndrome
  • wnchrs
- elite association - COSMIC cancer census association via MalaCards
Search BCAN in MalaCards View complete list of genes associated with diseases

Additional Disease Information for BCAN

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with BCAN: view

No data available for UniProtKB/Swiss-Prot and Genatlas for BCAN Gene

Publications for BCAN Gene

  1. Human BRAL1 and BCAN genes that belong to the link-module superfamily are tandemly arranged on chromosome 1q21-23. (PMID: 11873941) Nomoto H … Ninomiya Y (Acta medica Okayama 2002) 2 3 22
  2. cDNA cloning, chromosomal localization, and expression analysis of human BEHAB/brevican, a brain specific proteoglycan regulated during cortical development and in glioma. (PMID: 11054543) Gary SC … Hockfield S (Gene 2000) 2 3 4
  3. Confirmation of genomewide association signals in Chinese Han population reveals risk loci for ischemic stroke. (PMID: 19910543) Ding H … Wang DW (Stroke 2010) 3 40
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 3 4

ExternalLinks

View latest publications for BCAN gene in Mastermind

Products for BCAN Gene

  • Addgene plasmids for BCAN
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Sources for BCAN Gene