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Bcan brevican [ Mus musculus (house mouse) ]

Gene ID: 12032, updated on 11-Apr-2024

Summary

Official Symbol
Bcanprovided by MGI
Official Full Name
brevicanprovided by MGI
Primary source
MGI:MGI:1096385
See related
Ensembl:ENSMUSG00000004892 AllianceGenome:MGI:1096385
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Cspg7
Summary
Predicted to enable calcium ion binding activity; carbohydrate binding activity; and hyaluronic acid binding activity. Involved in synapse maturation. Acts upstream of or within hippocampus development. Located in extracellular matrix and glutamatergic synapse. Is expressed in several structures, including brain; genitourinary system; sensory organ; skeleton; and spinal cord. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human BCAN (brevican). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in frontal lobe adult (RPKM 53.5), cortex adult (RPKM 50.8) and 6 other tissues See more
Orthologs
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Genomic context

Location:
3 F1; 3 38.78 cM
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (87894839..87908458, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (87987531..88002175, complement)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene predicted gene 3745 Neighboring gene STARR-seq mESC enhancer starr_08169 Neighboring gene nestin Neighboring gene hyaluronan and proteoglycan link protein 2 Neighboring gene predicted gene, 19439

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1)  1 citation
  • Endonuclease-mediated (3) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

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 ISO
Inferred from Sequence Orthology
more info
 
involved_in central nervous system development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in glial cell differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within hippocampus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in neuron projection extension ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of neuroblast proliferation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in skeletal system development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in synapse maturation IDA
Inferred from Direct Assay
more info
PubMed 
involved_in synapse maturation IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in synapse maturation IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
is_active_in GABA-ergic synapse ISO
Inferred from Sequence Orthology
more info
 
located_in axon ISO
Inferred from Sequence Orthology
more info
 
located_in axon initial segment ISO
Inferred from Sequence Orthology
more info
 
located_in cell surface ISO
Inferred from Sequence Orthology
more info
 
located_in dendrite ISO
Inferred from Sequence Orthology
more info
 
located_in extracellular matrix IDA
Inferred from Direct Assay
more info
PubMed 
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 ISO
Inferred from Sequence Orthology
more info
 
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in glutamatergic synapse IEP
Inferred from Expression Pattern
more info
PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
 
located_in node of Ranvier ISO
Inferred from Sequence Orthology
more info
 
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 ISO
Inferred from Sequence Orthology
more info
 
is_active_in perisynaptic extracellular matrix ISO
Inferred from Sequence Orthology
more info
 
is_active_in synapse IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in synaptic membrane ISO
Inferred from Sequence Orthology
more info
 

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)

  1. NM_001109758.2NP_001103228.1  brevican core protein isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
    UniProtKB/Swiss-Prot
    Q61361
    UniProtKB/TrEMBL
    Q3TSQ8
    Related
    ENSMUST00000192274.6
    Conserved Domains (4) summary
    smart00410
    Location:43153
    IG_like; Immunoglobulin like
    cd03517
    Location:156250
    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:257352
    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:48157
    Ig; Immunoglobulin domain
  2. NM_001409541.1NP_001396470.1  brevican core protein isoform 1 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
    UniProtKB/Swiss-Prot
    Q61361, Q80WT7
  3. NM_001409542.1NP_001396471.1  brevican core protein isoform 1 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
    UniProtKB/Swiss-Prot
    Q61361, Q80WT7
  4. NM_001409543.1NP_001396472.1  brevican core protein isoform 1 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
    UniProtKB/Swiss-Prot
    Q61361, Q80WT7
  5. NM_001409545.1NP_001396474.1  brevican core protein isoform 1 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
    UniProtKB/Swiss-Prot
    Q61361, Q80WT7
  6. NM_001409546.1NP_001396475.1  brevican core protein isoform 3 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  7. NM_001409547.1NP_001396476.1  brevican core protein isoform 4 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  8. NM_001409548.1NP_001396477.1  brevican core protein isoform 4 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  9. NM_001409549.1NP_001396478.1  brevican core protein isoform 5 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  10. NM_001409550.1NP_001396479.1  brevican core protein isoform 5 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  11. NM_001409551.1NP_001396480.1  brevican core protein isoform 6 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  12. NM_001409552.1NP_001396481.1  brevican core protein isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC158233
  13. NM_001409553.1NP_001396482.1  brevican core protein isoform 8 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  14. NM_001409554.1NP_001396483.1  brevican core protein isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  15. NM_001409555.1NP_001396484.1  brevican core protein isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  16. NM_001409556.1NP_001396485.1  brevican core protein isoform 2 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  17. NM_001409557.1NP_001396486.1  brevican core protein isoform 9 precursor

    Status: VALIDATED

    Source sequence(s)
    AC158233
  18. NM_007529.3NP_031555.2  brevican core protein isoform 1 precursor

    See identical proteins and their annotated locations for NP_031555.2

    Status: VALIDATED

    Source sequence(s)
    AC158233
    Consensus CDS
    CCDS17462.1
    UniProtKB/Swiss-Prot
    Q61361, Q80WT7
    Related
    ENSMUSP00000088491.6, ENSMUST00000090971.11
    Conserved Domains (8) summary
    cd00033
    Location:791848
    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:156250
    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:257352
    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:626655
    EGF; EGF-like domain
    pfam03546
    Location:482615
    Treacle; Treacher Collins syndrome protein Treacle
    cd00096
    Location:4446
    Ig; Ig strand A' [structural motif]
    cl02432
    Location:664787
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    cl11960
    Location:44158
    Ig; Immunoglobulin domain

RNA

  1. NR_176864.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC158233
  2. NR_176865.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC158233

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000069.7 Reference GRCm39 C57BL/6J

    Range
    87894839..87908458 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036162863.1XP_036018756.1  brevican core protein isoform X1

    UniProtKB/Swiss-Prot
    Q61361, Q80WT7
    Conserved Domains (8) summary
    cd00033
    Location:791848
    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:156250
    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:257352
    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:626655
    EGF; EGF-like domain
    pfam03546
    Location:482615
    Treacle; Treacher Collins syndrome protein Treacle
    cd00096
    Location:4446
    Ig; Ig strand A' [structural motif]
    cl02432
    Location:664787
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    cl11960
    Location:44158
    Ig; Immunoglobulin domain
  2. XM_036162865.1XP_036018758.1  brevican core protein isoform X3

    Conserved Domains (6) summary
    cd00033
    Location:565622
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    cd03520
    Location:31126
    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:400429
    EGF; EGF-like domain
    pfam03546
    Location:256389
    Treacle; Treacher Collins syndrome protein Treacle
    cl02432
    Location:438561
    CLECT; C-type lectin (CTL)/C-type lectin-like (CTLD) domain
    cl02612
    Location:124
    Link_Domain; The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor ...

RNA

  1. XR_004941265.1 RNA Sequence