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Aliases for SEMA6B Gene

Aliases for SEMA6B Gene

  • Sema Domain, Transmembrane Domain (TM), And Cytoplasmic Domain, (Semaphorin) 6B 2 3
  • Semaphorin VIB 2 3
  • Semaphorin Z 2 3
  • SemaZ 3 4
  • SEMAN 3 4
  • Semaphorin-6Ba 3
  • Semaphorin-6B 3
  • Semaphorin-Z 4
  • SEM-SEMA-Y 3
  • Sema VIb 2
  • SEMA-VIB 3
  • Sema Z 4

External Ids for SEMA6B Gene

Previous Symbols for SEMA6B Gene

  • SEMAN

Summaries for SEMA6B Gene

Entrez Gene Summary for SEMA6B Gene

  • This gene encodes a member of the semaphorin family, a group of proteins characterized by the presence of a conserved semaphorin (sema) domain. Whereas some semaphorins are transmembrane proteins, others are secreted. Semaphorins play a major role in axon guidance. The protein encoded by this gene may be involved in both peripheral and central nervous system development. [provided by RefSeq, Jul 2008]

GeneCards Summary for SEMA6B Gene

SEMA6B (Sema Domain, Transmembrane Domain (TM), And Cytoplasmic Domain, (Semaphorin) 6B) is a Protein Coding gene. Among its related pathways are Axon guidance. GO annotations related to this gene include receptor activity and semaphorin receptor binding. An important paralog of this gene is SEMA6C.

UniProtKB/Swiss-Prot for SEMA6B Gene

  • May play a role in both peripheral and central nervous system development.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SEMA6B Gene

Genomics for SEMA6B Gene

Genomic Location for SEMA6B Gene

Start:
4,542,588 bp from pter
End:
4,559,808 bp from pter
Size:
17,221 bases
Orientation:
Minus strand

Genomic View for SEMA6B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SEMA6B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEMA6B Gene

Regulatory Elements for SEMA6B Gene

Proteins for SEMA6B Gene

  • Protein details for SEMA6B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H3T3-SEM6B_HUMAN
    Recommended name:
    Semaphorin-6B
    Protein Accession:
    Q9H3T3
    Secondary Accessions:
    • A5PKU4
    • F6IB19
    • Q9NRK9

    Protein attributes for SEMA6B Gene

    Size:
    888 amino acids
    Molecular mass:
    95285 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAF87661.1; Type=Miscellaneous discrepancy; Note=Aberrant splicing.; Evidence={ECO:0000305};

    Alternative splice isoforms for SEMA6B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SEMA6B Gene

Proteomics data for SEMA6B Gene at MOPED

Post-translational modifications for SEMA6B Gene

  • Modification sites at PhosphoSitePlus
  • Glycosylation at Asn74, Asn155, Asn167, Asn291, Asn386, Asn441, and Asn462

Other Protein References for SEMA6B Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SEMA6B Gene

Domains for SEMA6B Gene

Gene Families for SEMA6B Gene

HGNC:

Suggested Antigen Peptide Sequences for SEMA6B Gene

Graphical View of Domain Structure for InterPro Entry

Q9H3T3

UniProtKB/Swiss-Prot:

SEM6B_HUMAN
Domain:
  • Contains 1 Sema domain.:
    • Q9H3T3
Family:
  • Belongs to the semaphorin family.:
    • Q9H3T3
genes like me logo Genes that share domains with SEMA6B: view

Function for SEMA6B Gene

Molecular function for SEMA6B Gene

UniProtKB/Swiss-Prot Function: May play a role in both peripheral and central nervous system development.

Gene Ontology (GO) - Molecular Function for SEMA6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity IEA --
GO:0005515 protein binding --
GO:0030215 semaphorin receptor binding IEA --
genes like me logo Genes that share ontologies with SEMA6B: view

Phenotypes for SEMA6B Gene

MGI mutant phenotypes for SEMA6B:
inferred from 1 alleles
genes like me logo Genes that share phenotypes with SEMA6B: view

miRNA for SEMA6B Gene

miRTarBase miRNAs that target SEMA6B

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SEMA6B Gene

Localization for SEMA6B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEMA6B Gene

Cell membrane; Single-pass type I membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SEMA6B Gene COMPARTMENTS Subcellular localization image for SEMA6B gene
Compartment Confidence
plasma membrane 5
extracellular 2
endoplasmic reticulum 1
golgi apparatus 1
lysosome 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for SEMA6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane IEA --
GO:0016020 membrane --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SEMA6B: view

Pathways for SEMA6B Gene

SuperPathways for SEMA6B Gene

Superpath Contained pathways
1 Axon guidance
genes like me logo Genes that share pathways with SEMA6B: view

Pathways by source for SEMA6B Gene

1 KEGG pathway for SEMA6B Gene

Interacting Proteins for SEMA6B Gene

Gene Ontology (GO) - Biological Process for SEMA6B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organismal development --
GO:0007399 nervous system development IEA --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with SEMA6B: view

Compounds for SEMA6B Gene

(1) Novoseek inferred chemical compound relationships for SEMA6B Gene

Compound -log(P) Hits PubMed IDs
retinoic acid 43.1 3
genes like me logo Genes that share compounds with SEMA6B: view

Transcripts for SEMA6B Gene

Unigene Clusters for SEMA6B Gene

Sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6B:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SEMA6B Gene

No ASD Table

Relevant External Links for SEMA6B Gene

GeneLoc Exon Structure for
SEMA6B
ECgene alternative splicing isoforms for
SEMA6B

Expression for SEMA6B Gene

mRNA expression in normal human tissues for SEMA6B Gene

mRNA differential expression in normal tissues according to GTEx for SEMA6B Gene

This gene is overexpressed in Brain - Cortex (4.1) and Brain - Hippocampus (4.0).

Integrated Proteomics: protein expression from ProteomicsDB and MOPED for SEMA6B Gene

SOURCE GeneReport for Unigene cluster for SEMA6B Gene Hs.465642

genes like me logo Genes that share expressions with SEMA6B: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA Expression by UniProt/SwissProt for SEMA6B Gene

Orthologs for SEMA6B Gene

This gene was present in the common ancestor of animals.

Orthologs for SEMA6B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SEMA6B 35
  • 97.65 (n)
  • 96.83 (a)
SEMA6B 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SEMA6B 35
  • 89.67 (n)
  • 94.84 (a)
SEMA6B 36
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SEMA6B 36
  • 85 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sema6b 35
  • 82.79 (n)
  • 89.92 (a)
Sema6b 16
Sema6b 36
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SEMA6B 36
  • 50 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 70 (a)
OneToMany
-- 36
  • 33 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Sema6b 35
  • 82.69 (n)
  • 89.48 (a)
chicken
(Gallus gallus)
Aves SEMA6B 35
  • 72.36 (n)
  • 70.98 (a)
SEMA6B 36
  • 67 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SEMA6B 36
  • 76 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia sema6b 35
  • 62.68 (n)
  • 66.92 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC100148883 35
  • 62.17 (n)
  • 60.7 (a)
sema6ba 36
  • 53 (a)
OneToMany
sema6bb 36
  • 62 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Sema-2a 36
  • 28 (a)
ManyToMany
Sema-2b 36
  • 26 (a)
ManyToMany
Sema-1b 37
  • 36 (a)
Sema-1a 37
  • 39 (a)
CG4383 37
  • 37 (a)
worm
(Caenorhabditis elegans)
Secernentea mab-20 37
  • 29 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 28 (a)
OneToMany
Species with no ortholog for SEMA6B:
  • A. gosspyii yeast (Ashbya 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)
  • 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 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 SEMA6B Gene

ENSEMBL:
Gene Tree for SEMA6B (if available)
TreeFam:
Gene Tree for SEMA6B (if available)

Paralogs for SEMA6B Gene

Paralogs for SEMA6B Gene

Selected SIMAP similar genes for SEMA6B Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with SEMA6B: view

Variants for SEMA6B Gene

Sequence variations from dbSNP and Humsavar for SEMA6B Gene

SNP ID Clin Chr 19 pos Sequence Context AA Info Type MAF
rs919799 -- 4,553,213(-) cccac(A/C)catcc intron-variant
rs1599807 -- 4,555,967(-) CCCTG(C/T)GCCCC intron-variant
rs1610093 -- 4,554,762(-) TTAGA(A/G)GCCCA intron-variant
rs1610094 -- 4,554,571(-) GCCTA(G/T)GTCCC intron-variant
rs2043328 -- 4,550,686(-) TACCC(A/G)TTATA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SEMA6B Gene

Variant ID Type Subtype PubMed ID
nsv910820 CNV Gain 21882294
dgv3674n71 CNV Loss 21882294
dgv3676n71 CNV Loss 21882294
dgv3678n71 CNV Loss 21882294
nsv910842 CNV Loss 21882294
nsv910843 CNV Loss 21882294
nsv428361 CNV Loss 18775914
nsv828405 CNV Gain 20364138
nsv910844 CNV Loss 21882294
dgv614e199 CNV Deletion 23128226
nsv2394 CNV Loss 18451855

Relevant External Links for SEMA6B Gene

HapMap Linkage Disequilibrium report
SEMA6B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEMA6B Gene

Disorders for SEMA6B Gene

No disorders were found for SEMA6B Gene.

No data available for UniProtKB/Swiss-Prot for SEMA6B Gene

Publications for SEMA6B Gene

  1. Human semaphorin 6b [(HSA)SEMA6B], a novel human class 6 semaphorin gene: alternative splicing and all-trans-retinoic acid-dependent downregulation in glioblastoma cell lines. (PMID: 11350127) Correa R.G. … Simpson A.J.G. (Genomics 2001) 3 4 23
  2. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PMID: 15340161) Zhang Z. … Henzel W.J. (Protein Sci. 2004) 3 4
  3. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark H.F. … Gray A.M. (Genome Res. 2003) 3 4
  4. The human semaphorin 6B gene is down regulated by PPARs. (PMID: 15177567) Collet P. … DauAsa M. (Genomics 2004) 3
  5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3

Products for SEMA6B Gene

  • antibodies-online proteins for SEMA6B
  • antibodies-online antibodies for SEMA6B
  • antibodies-online kits for SEMA6B

Sources for SEMA6B Gene

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