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Aliases for SEMA3B Gene

Aliases for SEMA3B Gene

  • Sema Domain, Immunoglobulin Domain (Ig), Short Basic Domain, Secreted, (Semaphorin) 3B 2 3
  • SEMA5 3 4 6
  • Semaphorin-V 3 4
  • Sema A(V) 3 4
  • SEMAA 3 4
  • Semaphorin-3B 3
  • Semaphorin A 3
  • LuCa-1 3
  • Sema V 4
  • SemaV 3
  • SEMA 3

External Ids for SEMA3B Gene

Previous HGNC Symbols for SEMA3B Gene

  • SEMAA

Previous GeneCards Identifiers for SEMA3B Gene

  • GC03M049672
  • GC03M049841
  • GC03P050159
  • GC03P050265
  • GC03P050281
  • GC03P050304

Summaries for SEMA3B Gene

Entrez Gene Summary for SEMA3B Gene

  • The protein encoded by this gene belongs to the class-3 semaphorin/collapsin family, whose members function in growth cone guidance during neuronal development. This family member inhibits axonal extension and has been shown to act as a tumor suppressor by inducing apoptosis. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Feb 2014]

GeneCards Summary for SEMA3B Gene

SEMA3B (Sema Domain, Immunoglobulin Domain (Ig), Short Basic Domain, Secreted, (Semaphorin) 3B) is a Protein Coding gene. Diseases associated with SEMA3B include phencyclidine abuse and renal cell carcinoma. Among its related pathways are Axon guidance and Neuroscience. GO annotations related to this gene include receptor activity.

UniProtKB/Swiss-Prot for SEMA3B Gene

  • Inhibits axonal extension by providing local signals to specify territories inaccessible for growing axons.

Gene Wiki entry for SEMA3B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SEMA3B Gene

Genomics for SEMA3B Gene

Regulatory Elements for SEMA3B Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SEMA3B Gene

Start:
50,267,558 bp from pter
End:
50,277,546 bp from pter
Size:
9,989 bases
Orientation:
Plus strand

Genomic View for SEMA3B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SEMA3B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEMA3B Gene

Proteins for SEMA3B Gene

  • Protein details for SEMA3B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q13214-SEM3B_HUMAN
    Recommended name:
    Semaphorin-3B
    Protein Accession:
    Q13214
    Secondary Accessions:
    • Q6GU46
    • Q8TB71
    • Q8TDV7
    • Q93018
    • Q96GX0

    Protein attributes for SEMA3B Gene

    Size:
    749 amino acids
    Molecular mass:
    83122 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=AAC02731.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for SEMA3B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SEMA3B Gene

Proteomics data for SEMA3B Gene at MOPED

Post-translational modifications for SEMA3B Gene

  • Glycosylation at Asn82, Asn124, Asn427, and Thr611
  • Modification sites at PhosphoSitePlus

Antibody Products

  • R&D Systems Antibodies for SEMA3B (Semaphorin 3B)
  • Cell Signaling Technology (CST) Antibodies for SEMA3B (SEMA3B)

No data available for DME Specific Peptides for SEMA3B Gene

Domains for SEMA3B Gene

Gene Families for SEMA3B Gene

HGNC:
  • IGD :Immunoglobulin superfamily / Immunoglobulin-like domain containing
  • SEMA :Semaphorins

Suggested Antigen Peptide Sequences for SEMA3B Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q13214

UniProtKB/Swiss-Prot:

SEM3B_HUMAN :
  • Q13214
Domain:
  • Contains 1 Ig-like C2-type (immunoglobulin-like) domain.
  • Contains 1 PSI domain.
  • Contains 1 Sema domain.
Family:
  • Belongs to the semaphorin family.
genes like me logo Genes that share domains with SEMA3B: view

Function for SEMA3B Gene

Molecular function for SEMA3B Gene

GENATLAS Biochemistry: semaphorin 3B,secreted,expressed in neuronal and non neuronal tissues,repellent of the nerve growth cone guidance
UniProtKB/Swiss-Prot Function: Inhibits axonal extension by providing local signals to specify territories inaccessible for growing axons.

Gene Ontology (GO) - Molecular Function for SEMA3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity IEA --
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with SEMA3B: view

Phenotypes for SEMA3B Gene

MGI mutant phenotypes for SEMA3B:
inferred from 4 alleles
GenomeRNAi human phenotypes for SEMA3B:
genes like me logo Genes that share phenotypes with SEMA3B: view

Animal Models for SEMA3B Gene

MGI Knock Outs for SEMA3B:

Animal Model Products

CRISPR Products

miRNA for SEMA3B Gene

miRTarBase miRNAs that target SEMA3B

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for SEMA3B Gene

Localization for SEMA3B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEMA3B Gene

Secreted. Endoplasmic reticulum. Note=Accumulates in the endoplasmic reticulum.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SEMA3B Gene COMPARTMENTS Subcellular localization image for SEMA3B gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 2
plasma membrane 2
golgi apparatus 1
lysosome 1

Gene Ontology (GO) - Cellular Components for SEMA3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0016020 membrane IEA --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with SEMA3B: view

Pathways for SEMA3B Gene

SuperPathways for SEMA3B Gene

Superpath Contained pathways
1 Axon guidance
2 Neuroscience
genes like me logo Genes that share pathways with SEMA3B: view

Pathways by source for SEMA3B Gene

1 Cell Signaling Technology pathway for SEMA3B Gene
1 KEGG pathway for SEMA3B Gene

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Interacting Proteins for SEMA3B Gene

Selected Interacting proteins: Q13214-SEM3B_HUMAN for SEMA3B Gene via I2D

Gene Ontology (GO) - Biological Process for SEMA3B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007267 cell-cell signaling TAS 8633026
GO:0007275 multicellular organismal development --
GO:0007411 axon guidance TAS 8633026
genes like me logo Genes that share ontologies with SEMA3B: view

Compounds for SEMA3B Gene

(4) Novoseek inferred chemical compound relationships for SEMA3B Gene

Compound -log(P) Hits PubMed IDs
vegf 53.1 8
5-aza-2deoxycytidine 43.6 2
tyrosine 15.8 1
retinoic acid 10.9 2
genes like me logo Genes that share compounds with SEMA3B: view

Transcripts for SEMA3B Gene

Unigene Clusters for SEMA3B Gene

Sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SEMA3B

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SEMA3B Gene

ExUns: 1 ^ 2a · 2b · 2c · 2d ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8a · 8b · 8c · 8d ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b · 12c ^
SP1: - - - - - - -
SP2: - - - - - - -
SP3: - - - - - -
SP4: - - - - -
SP5: - - - - -
SP6: - -
SP7: - - - - - - -
SP8: - - - -
SP9: - - - - -
SP10:
SP11: - - - - - -
SP12:
SP13:
SP14: - - - - - -
SP15:
SP16: - - - -
SP17:

ExUns: 13a · 13b ^ 14a · 14b ^ 15 ^ 16a · 16b · 16c · 16d ^ 17 ^ 18 ^ 19a · 19b · 19c · 19d · 19e
SP1: - -
SP2: - -
SP3: - -
SP4: - -
SP5: - -
SP6: - -
SP7: - - - - -
SP8:
SP9:
SP10: -
SP11: - -
SP12: -
SP13:
SP14:
SP15:
SP16:
SP17:

Relevant External Links for SEMA3B Gene

GeneLoc Exon Structure for
SEMA3B
ECgene alternative splicing isoforms for
SEMA3B

Expression for SEMA3B Gene

mRNA expression in normal human tissues for SEMA3B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SEMA3B Gene

This gene is overexpressed in Nerve - Tibial (6.0) and Adrenal Gland (4.5).

Integrated Proteomics: protein expression from ProteomicsDB, MOPED, and MaxQB for SEMA3B Gene

SOURCE GeneReport for Unigene cluster for SEMA3B Gene Hs.82222

mRNA Expression by UniProt/SwissProt for SEMA3B Gene

Q13214-SEM3B_HUMAN
Tissue specificity: Expressed abundantly but differentially in a variety of neural and nonneural tissues
genes like me logo Genes that share expressions with SEMA3B: view

In Situ Assay Products

Orthologs for SEMA3B Gene

This gene was present in the common ancestor of chordates.

Orthologs for SEMA3B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SEMA3B 35
  • 97.85 (n)
  • 96.63 (a)
cow
(Bos Taurus)
Mammalia SEMA3B 35
  • 87.3 (n)
  • 90.24 (a)
dog
(Canis familiaris)
Mammalia SEMA3B 35
  • 87.12 (n)
  • 90.24 (a)
mouse
(Mus musculus)
Mammalia Sema3b 35
  • 83.13 (n)
  • 88.65 (a)
Sema3b 16
rat
(Rattus norvegicus)
Mammalia Sema3b 35
  • 83.49 (n)
  • 89.19 (a)
chicken
(Gallus gallus)
Aves SEMA3B 35
  • 77.22 (n)
  • 78.41 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia sema3b 35
  • 63.12 (n)
  • 66.25 (a)
zebrafish
(Danio rerio)
Actinopterygii si:ch211-106g4.2 35
  • 63.95 (n)
  • 65.19 (a)
Species with no ortholog for SEMA3B:
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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)
  • worm (Caenorhabditis elegans)

Evolution for SEMA3B Gene

ENSEMBL:
Gene Tree for SEMA3B (if available)
TreeFam:
Gene Tree for SEMA3B (if available)

Paralogs for SEMA3B Gene

genes like me logo Genes that share paralogs with SEMA3B: view

No data available for Paralogs for SEMA3B Gene

Variants for SEMA3B Gene

Sequence variations from dbSNP and Humsavar for SEMA3B Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs762705 -- 50,276,096(-) TGAAC(G/T)TGGTG intron-variant
rs762706 -- 50,276,092(-) CTTGG(G/T)GGGGG intron-variant
rs2071203 A non-small cell lung cancer cell line 50,274,469(-) CCCCA(A/G)TGGGC reference, missense, nc-transcript-variant
rs2269430 -- 50,269,619(+) ACCCC(C/T)AACAA intron-variant
rs2269431 -- 50,273,890(+) CTCAC(C/T)TCGCC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SEMA3B Gene

Variant ID Type Subtype PubMed ID
nsv523662 CNV Loss 19592680
nsv876769 CNV Loss 21882294
nsv470561 CNV Loss 18288195
nsv876770 CNV Loss 21882294
nsv523560 CNV Loss 19592680
dgv602n27 CNV Loss 19166990
dgv1456e1 CNV Complex 17122850
nsv834692 CNV Loss 17160897
nsv460531 CNV Loss 19166990
dgv5131n71 CNV Loss 21882294
dgv5132n71 CNV Loss 21882294
nsv834693 CNV Loss 17160897

Relevant External Links for SEMA3B Gene

HapMap Linkage Disequilibrium report
SEMA3B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEMA3B Gene

Disorders for SEMA3B Gene

MalaCards: The human disease database

MalaCards: The human disease database. (2) Diseases for SEMA3B Gene including...

Search for SEMA3B Gene in MalaCards »

(1) University of Copenhagen DISEASES for SEMA3B Gene

(7) Novoseek inferred disease relationships for SEMA3B Gene

Disease -log(P) Hits PubMed IDs
cancer lung 45.9 6
tumors 36.4 38
nsclc 33.6 5
cancer 13.1 2
breast cancer 3.82 8

Relevant External Links for SEMA3B

Genetic Association Database (GAD)
SEMA3B
Human Genome Epidemiology (HuGE) Navigator
SEMA3B
genes like me logo Genes that share disorders with SEMA3B: view

No data available for UniProtKB/Swiss-Prot for SEMA3B Gene

Publications for SEMA3B Gene

  1. The race associated allele of Semaphorin 3B (SEMA3B) T415I and its role in lung cancer in African-Americans and Latino-Americans. (PMID: 15831529) Marsit C.J. … Kelsey K.T. (Carcinogenesis 2005) 3 23 48
  2. Semaphorin 3B and 3F single nucleotide polymorphisms are associated with prostate cancer risk and poor prognosis. (PMID: 19683737) Beuten J. … Naylor S.L. (J. Urol. 2009) 3 23 48
  3. Human semaphorins A(V) and IV reside in the 3p21.3 small cell lung cancer deletion region and demonstrate distinct expression patterns. (PMID: 8633026) Sekido Y. … Minna J.D. (Proc. Natl. Acad. Sci. U.S.A. 1996) 2 3 4
  4. The 630-kb lung cancer homozygous deletion region on human chromosome 3p21.3: identification and evaluation of the resident candidate tumor suppressor genes. (PMID: 11085536) Lerman M.I. … Minna J.D. (Cancer Res. 2000) 3 4
  5. Semaphorin-3B is an angiogenesis inhibitor that is inactivated by furin-like pro-protein convertases. (PMID: 18757406) Varshavsky A. … Neufeld G. (Cancer Res. 2008) 3 23

Products for SEMA3B Gene

Sources for SEMA3B Gene

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