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Aliases for SEMA6B Gene

Aliases for SEMA6B Gene

  • Semaphorin 6B 2 3
  • Sema Domain, Transmembrane Domain (TM), And Cytoplasmic Domain, (Semaphorin) 6B 2 3 5
  • Semaphorin VIB 2 3
  • Semaphorin Z 2 3
  • SemaZ 3 4
  • SEMAN 3 4
  • Semaphorin-6Ba 3
  • Semaphorin-Z 4
  • SEM-SEMA-Y 3
  • Sema VIb 2
  • SEMA-VIB 3
  • Sema Z 4

External Ids for SEMA6B Gene

Previous HGNC Symbols for SEMA6B Gene

  • SEMAN

Previous GeneCards Identifiers for SEMA6B Gene

  • GC19M004634
  • GC19M004482
  • GC19M004493
  • GC19M004304

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 (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

Regulatory Elements for SEMA6B Gene

Genomic Location for SEMA6B Gene

Chromosome:
19
Start:
4,542,587 bp from pter
End:
4,581,602 bp from pter
Size:
39,016 bases
Orientation:
Minus strand

Genomic View for SEMA6B Gene

Genes around SEMA6B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEMA6B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEMA6B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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

  • Glycosylation at Asn 74, Asn 155, Asn 167, Asn 291, Asn 386, Asn 441, and Asn 462
  • Modification sites at PhosphoSitePlus

Other Protein References for SEMA6B Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • R&D Systems Antibodies for SEMA6B (Semaphorin 6B)

No data available for DME Specific Peptides for SEMA6B Gene

Domains & Families for SEMA6B Gene

Gene Families for SEMA6B Gene

Suggested Antigen Peptide Sequences for SEMA6B Gene

Graphical View of Domain Structure for InterPro Entry

Q9H3T3

UniProtKB/Swiss-Prot:

SEM6B_HUMAN :
  • Contains 1 Sema domain.
  • Belongs to the semaphorin family.
Domain:
  • Contains 1 Sema domain.
Family:
  • Belongs to the semaphorin family.
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.

Phenotypes for SEMA6B Gene

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

Animal Models for SEMA6B Gene

MGI Knock Outs for SEMA6B:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets 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
vacuole 1

No data available for Gene Ontology (GO) - Cellular Components for SEMA6B Gene

Pathways & Interactions 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:0030335 positive regulation of cell migration IBA --
GO:0048843 negative regulation of axon extension involved in axon guidance IBA --
genes like me logo Genes that share ontologies with SEMA6B: view

No data available for SIGNOR curated interactions for SEMA6B Gene

Drugs & Compounds for SEMA6B Gene

(1) Additional Compounds for SEMA6B Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
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 (x4.1) and Brain - Hippocampus (x4.0).

Protein differential expression in normal tissues from HIPED for SEMA6B Gene

This gene is overexpressed in Liver, secretome (66.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SEMA6B Gene



SOURCE GeneReport for Unigene cluster for SEMA6B Gene Hs.465642

genes like me logo Genes that share expression patterns with SEMA6B: view

Protein tissue co-expression partners for SEMA6B Gene

- Elite partner

Primer Products

In Situ Assay Products

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
cow
(Bos Taurus)
Mammalia SEMA6B 35
  • 89.67 (n)
  • 94.84 (a)
SEMA6B 36
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sema6b 35
  • 82.79 (n)
  • 89.92 (a)
Sema6b 16
Sema6b 36
  • 90 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SEMA6B 35
  • 97.65 (n)
  • 96.83 (a)
SEMA6B 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sema6b 35
  • 82.69 (n)
  • 89.48 (a)
dog
(Canis familiaris)
Mammalia SEMA6B 36
  • 85 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SEMA6B 36
  • 50 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 70 (a)
OneToMany
-- 36
  • 33 (a)
OneToMany
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 CG4383 37
  • 37 (a)
Sema-1a 37
  • 39 (a)
Sema-1b 37
  • 36 (a)
Sema-2a 36
  • 28 (a)
ManyToMany
Sema-2b 36
  • 26 (a)
ManyToMany
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

(4) 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
rs892163 -- 4,573,562(-) TAATT(A/T)ATTTA intron-variant
rs892164 -- 4,569,580(-) TCCCA(A/G)CACTT intron-variant
rs1808669 -- 4,572,128(-) cccca(A/T)ctgta intron-variant
rs1808670 -- 4,569,447(-) CTGTA(A/G)TCCCA intron-variant
rs1808671 -- 4,569,326(-) ATCTC(A/C)AAAAA 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

Variation tolerance for SEMA6B Gene

Residual Variation Intolerance Score: 9.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.97; 36.45% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SEMA6B Gene

HapMap Linkage Disequilibrium report
SEMA6B
Human Gene Mutation Database (HGMD)
SEMA6B

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

Disorders for SEMA6B Gene

Relevant External Links for SEMA6B

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SEMA6B

No disorders were found for SEMA6B Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 67
  2. Analysis of SEMA6B gene expression in breast cancer: identification of a new isoform. (PMID: 23665584) D'Apice L. … De Berardinis P. (Biochim. Biophys. Acta 2013) 3
  3. The role of axon guidance factor semaphorin 6B in the invasion and metastasis of gastric cancer. (PMID: 23781008) Ge C. … Xu X. (J. Int. Med. Res. 2013) 3
  4. 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
  5. Effects of PPAR and RXR ligands in semaphorin 6B gene expression of human MCF-7 breast cancer cells. (PMID: 16525649) Murad H. … DauAsa M. (Int. J. Oncol. 2006) 23

Products for SEMA6B Gene

Sources for SEMA6B Gene

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