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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SEMA3A Gene

protein-coding   GIFtS: 65
GCID: GC07M083587

Sema Domain, Immunoglobulin Domain (Ig), Short Basic Domain,...


(Previous symbol: SEMAD)
Alzheimer's & Parkinson's Diseases Congress
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Sema Domain, Immunoglobulin Domain (Ig), Short Basic Domain, Secreted,
(Semaphorin) 3A1 2
     SEMAIII2
SEMAD1 2 3     SEMAL2
Sema III1 3     SemD2
Semaphorin III2 3     coll-12
COLL12     Collapsin 12
HH162     Semaphorin D2
Hsema-I2     Semaphorin L2
Hsema-III2     semaphorin-3A2
SEMA12     

External Ids:    HGNC: 107231   Entrez Gene: 103712   Ensembl: ENSG000000752137   OMIM: 6039615   UniProtKB: Q145633   

Export aliases for SEMA3A gene to outside databases

Previous GC identifers: GC07M082125 GC07M083188 GC07M083202 GC07M083235 GC07M083428 GC07M078196


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for SEMA3A Gene:
This gene is a member of the semaphorin family and encodes a protein with an Ig-like C2-type (immunoglobulin-like)
domain, a PSI domain and a Sema domain. This secreted protein can function as either a chemorepulsive agent,
inhibiting axonal outgrowth, or as a chemoattractive agent, stimulating the growth of apical dendrites. In both
cases, the protein is vital for normal neuronal pattern development. Increased expression of this protein is
associated with schizophrenia and is seen in a variety of human tumor cell lines. Also, aberrant release of this
protein is associated with the progression of Alzheimer's disease. (provided by RefSeq, Jul 2008)

GeneCards Summary for SEMA3A Gene: 
SEMA3A (sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A) is a protein-coding gene. Diseases associated with SEMA3A include achondrogenesis type ii, and achondrogenesis, and among its related super-pathways are Rac1 Pathway and Ras Pathway. GO annotations related to this gene include chemorepellent activity and receptor activity. An important paralog of this gene is SEMA3C.

UniProtKB/Swiss-Prot: SEM3A_HUMAN, Q14563
Function: Involved in the development of the olfactory system and in neuronal control of puberty. Induces the
collapse and paralysis of neuronal growth cones. Could serve as a ligand that guides specific growth cones by a
motility-inhibiting mechanism. Binds to the complex neuropilin-1/plexin-1

Gene Wiki entry for SEMA3A Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000007.13  NT_007933.15  NC_018918.2  NT_079595.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SEMA3A gene promoter:
         STAT1   AP-1   Brachyury   ATF-2   Ik-3   FOXL1   Arnt   S8   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSEMA3A promoter sequence
   Search SABiosciences Chromatin IP Primers for SEMA3A

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SEMA3A


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 7p12.1   Ensembl cytogenetic band:  7q21.11   HGNC cytogenetic band: 7p12.1

SEMA3A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SEMA3A gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M083587:  view genomic region     (about GC identifiers)

Start:
83,587,659 bp from pter      End:
84,122,040 bp from pter
Size:
534,382 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 82,919,781-83,156,009     

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SEM3A_HUMAN, Q14563 (See protein sequence)
Recommended Name: Semaphorin-3A precursor  
Size: 771 amino acids; 88889 Da
Subunit: Interacts with PLXND1 (By similarity)
Subcellular location: Secreted (By similarity)

Explore the universe of human proteins at neXtProt for SEMA3A: NX_Q14563

Explore proteomics data for SEMA3A at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q14563

  • SEMA3A Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SEMA3A Protein Expression
    REFSEQ proteins: NP_006071.1  
    ENSEMBL proteins: 
     ENSP00000265362   ENSP00000415260   ENSP00000391900   ENSP00000402093   ENSP00000404800  
    Reactome Protein details: Q14563
    Human Recombinant Protein Products for SEMA3A: 
    EMD Millipore Purified and/or Recombinant SEMA3A Protein
    R&D Systems Recombinant & Natural Proteins for SEMA3A (Semaphorin 3A)
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    Novus Biologicals SEMA3A Protein
    Novus Biologicals SEMA3A Lysate
    Sino Biological Recombinant Protein for SEMA3A
    Sino Biological Cell Lysate for SEMA3A 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SEMA3A 

    Gene Ontology (GO): 4 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region TAS--
    GO:0016020membrane IEA--
    GO:0030424axon IEA--
    GO:0030425dendrite IEA--

    SEMA3A for ontologies           About GeneDecksing



    SEMA3A Antibody Products: 
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    Abcam antibodies for SEMA3A
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    ThermoFisher Antibodies for SEMA3A
    LSBio Antibodies in human, mouse, rat for SEMA3A 

    Assay Products for SEMA3A: 
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    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for SEMA3A 
    Cloud-Clone Corp. CLIAs for SEMA3A


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    IGD: Immunoglobulin superfamily / Immunoglobulin-like domain containing
    SEMA: Semaphorins

    5/8 InterPro protein domains (see all 8):
     IPR007110 Ig-like_dom
     IPR003659 Plexin-like
     IPR003599 Ig_sub
     IPR016201 Plexin-like_fold
     IPR013783 Ig-like_fold

    Graphical View of Domain Structure for InterPro Entry Q14563

    ProtoNet protein and cluster: Q14563

    2 Blocks protein domains:
    IPB001627 Semaphorin/CD100 antigen
    IPB003599 Immunoglobulin subtype


    UniProtKB/Swiss-Prot: SEM3A_HUMAN, Q14563
    Domain: Strong binding to neuropilin is mediated by the carboxy third of the protein
    Similarity: Belongs to the semaphorin family
    Similarity: Contains 1 Ig-like C2-type (immunoglobulin-like) domain
    Similarity: Contains 1 PSI domain
    Similarity: Contains 1 Sema domain


    SEMA3A for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SEM3A_HUMAN, Q14563
    Function: Involved in the development of the olfactory system and in neuronal control of puberty. Induces the
    collapse and paralysis of neuronal growth cones. Could serve as a ligand that guides specific growth cones by a
    motility-inhibiting mechanism. Binds to the complex neuropilin-1/plexin-1

         Genatlas biochemistry entry for SEMA3A:
    semaphorin 3A,secreted,repellent of the nerve growth cone guidance

         Summary:
    During embryonic development, SEMA3A as signaling molecule
    affects the following cells: Embryonic Dopaminergic Neurons in Ventral Tegmental Area, Embryonic Dopaminergic Neurons in Substantia Nigra pars Compacta

         Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004872receptor activity IEA--
    GO:0005515protein binding ----
    GO:0045499chemorepellent activity TAS19909241
         
    SEMA3A for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SEMA3A:
     Decreased focal adhesion (FA)  

         11 MGI mutant phenotypes (inferred from 5 alleles(MGI details for Sema3a):
     behavior/neurological  cardiovascular system  cellular  growth/size  immune system 
     mortality/aging  nervous system  no phenotypic analysis  renal/urinary system  respiratory system 
     skeleton 

    SEMA3A for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-outs for SEMA3A: Sema3atm1.1Tyag Sema3atm1Mcf

       inGenious Targeting Laboratory - Custom generated mouse model solutions for SEMA3A 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for SEMA3A

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SEMA3A 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SEMA3A 

    miRNA
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    hsa-miR-517a hsa-miR-4272 hsa-miR-15a hsa-miR-199a-3p hsa-miR-411 hsa-miR-605 hsa-miR-1260b hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmidSEMA3A 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for SEMA3A
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                         Customized lentivirus expression plasmids for stable overexpression of SEMA3A 

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SEMA3A


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for SEMA3A About   (see all 19)                                                                                              See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Apoptotic Pathways in Synovial Fibroblasts
    Mitochondrial Apoptosis0.85
    Rac1 Pathway0.65
    Cellular Apoptosis Pathway0.85
    Glioma Invasiveness0.64
    Apoptotic Pathways in Synovial Fibroblasts0.84
    Actin-Based Motility by Rho Family GTPases0.62
    p53 Mediated Apoptosis0.84
    ERK5 Signaling0.61
    2GPCR Pathway
    Ras Pathway0.73
    Breast Cancer Regulation by Stathmin10.58
    Paxillin Interactions0.73
    NFAT in Immune Response0.58
    GPCR Pathway0.62
    Estrogen Pathway0.55
    Pancreatic Adenocarcinoma0.59
    3Rho Family GTPases
    Rho Family GTPases0.61
    Molecular Mechanisms of Cancer0.51
    ERK Signaling0.61
    ILK Signaling0.49
    MAPK Signaling0.58
    4Nanog in Mammalian ESC Pluripotency
    Nanog in Mammalian ESC Pluripotency0.61
    14-3-3 Induced Intracellular Signaling0.59
    GSK3 Signaling0.61
    eNOS Signaling0.48
    5TGF-Beta Pathway
    TGF-Beta Pathway0.60
    JAK-STAT Pathway0.57
    MAPK Family Pathway0.60
    JNK Pathway0.51

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways

    1 EMD Millipore Pathway for SEMA3A
        Neurophysiological process Receptor-mediated axon growth repulsion

    5/56 Downloadable PowerPoint Slides of QIAGEN Pathway Central Maps for SEMA3A (see all 56)
        Nuclear Receptor Activation by Vitamin-A
    Paxillin Interactions
    Telomerase Components in Cell Signaling
    Mitochondrial Apoptosis
    Molecular Mechanisms of Cancer

    1 GeneGo (Thomson Reuters) Pathway for SEMA3A
        Neurophysiological process Receptor-mediated axon growth repulsion


    5/6        Reactome Pathways for SEMA3A (see all 6)
        CRMPs in Sema3A signaling
    Developmental Biology
    Semaphorin interactions
    Sema3A PAK dependent Axon repulsion
    SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion


    1         Kegg Pathway  (Kegg details for SEMA3A):
        Axon guidance


    SEMA3A for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SEMA3A

    STRING Interaction Network Preview (showing 5 interactants - click image to see 23)

    5/25 Interacting proteins for SEMA3A (Q145633 ENSP000002653624) via UniProtKB, MINT, STRING, and/or I2D (see all 25)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    NRP1O147863, ENSP000002653714I2D: score=1 STRING: ENSP00000265371
    NPR1P160663I2D: score=1 
    SEMA3BQ132143I2D: score=1 
    CDK5ENSP000002975184STRING: ENSP00000297518
    CDK5R1ENSP000003184864STRING: ENSP00000318486
    About this table

    Gene Ontology (GO): 5/24 biological process terms (GO ID links to tree view) (see all 24):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001764neuron migration ISS--
    GO:0002027regulation of heart rate IEA--
    GO:0006915apoptotic process IEA--
    GO:0007275multicellular organismal development ----
    GO:0007411axon guidance TAS19909241

    SEMA3A for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    SEMA3A for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SEMA3A (SEM3A)

    5 Novoseek inferred chemical compound relationships for SEMA3A gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    vegf 49.2 38 14656993 (4), 12617854 (2), 14500350 (2), 14516677 (2) (see all 13)
    guanylate 3.34 2 10766232 (2)
    calcium 0 3 18549782 (1), 19650914 (1), 15831706 (1)
    tyrosine 0 7 20159040 (2), 18831963 (1), 11331362 (1), 12611639 (1)
    serine 0 1 10588393 (1)

    Search CenterWatch for drugs/clinical trials and news about SEMA3A / SEM3A

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SEMA3A gene: 
    NM_006080.2  

    Unigene Cluster for SEMA3A:

    Sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3A
    Hs.252451  [show with all ESTs]
    Unigene Representative Sequence: NM_006080
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000265362(uc003uhz.3) ENST00000436949 ENST00000420047 ENST00000448879
    ENST00000424555 ENST00000471474 ENST00000490883

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    8/85 QIAGEN miScript miRNA Assays for microRNAs that regulate SEMA3A (see all 85):
    hsa-miR-517a hsa-miR-4272 hsa-miR-15a hsa-miR-199a-3p hsa-miR-411 hsa-miR-605 hsa-miR-1260b hsa-miR-30d
    SwitchGear 3'UTR luciferase reporter plasmidSEMA3A 3' UTR sequence
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SEMA3A
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SEMA3A

    Additional mRNA sequence: 

    AK289954.1 BC111416.1 L26081.1 

    3 DOTS entries:

    DT.205342  DT.75107544  DT.100831605 

    24/64 AceView cDNA sequences (see all 64):

    BQ447821 AI240274 AA861394 BX283116 BM670627 BQ007348 BU687513 AA450244 
    BI870437 BQ018643 BM711125 L26081 AA476744 AA716143 AI671991 BE552070 
    BU729715 BX510254 BM729169 CF597187 BM090555 AA476741 AW207285 CD216784 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SEMA3A expression in normal human tissues (normalized intensities)      SEMA3A embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SEMA3A Expression
    About this image


    SEMA3A expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/29 selected tissues (see all 29) fully expand
     
     Brain (Nervous System)    fully expand to see all 23 entries
             Choroid Plexus Progenitor Cells Choroid Plexus
             Thalamus
             Olfactory Bulb   
     
     Neural Tube (Nervous System)    fully expand to see all 7 entries
             Telencephalon
     
     Heart (Cardiovascular System)    fully expand to see all 3 entries
             heart/atrium   
     
     Eye (Sensory Organs)    fully expand to see all 2 entries
             Retina
             Limbal epithelial stem cells
     
     Neural Crest (Gastrulation Derivatives)    fully expand to see all 2 entries
             PureStem SM30, NCr-fac & Meso-latp Progenitor
             mesenchyme/trunk mesenchyme   

    See SEMA3A Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SEMA3A

    SOURCE GeneReport for Unigene cluster: Hs.252451
        SABiosciences Expression via Pathway-Focused PCR Array including SEMA3A: 
              Embryonic Stem Cells in human mouse rat

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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SEMA3A
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SEMA3A

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of animals.

    Orthologs for SEMA3A gene from 6/13 species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Sema3a1 , 5 sema domain, immunoglobulin domain (Ig), short basic more1, 5 88.63(n)1
    95.59(a)1
      5 (4.31 cM)5
    203461  NM_001243072.11  NP_001230001.11 
     133967845 
    chicken
    (Gallus gallus)
    Aves SEMA3A1 sema domain, immunoglobulin domain (Ig), short basic more 81.88(n)
    88.59(a)
      395825  NM_204977.1  NP_990308.2 
    lizard
    (Anolis carolinensis)
    Reptilia SEMA3A6
    sema domain, immunoglobulin domain (Ig), short bas...
    88(a)
    1 ↔ 1
    5(87899979-88133573)
    African clawed frog
    (Xenopus laevis)
    Amphibia sema3a-A2 sema domain, immunoglobulin domain (Ig), short basic more 82.73(n)    AY030051.1 
    zebrafish
    (Danio rerio)
    Actinopterygii sema3ab2 semaphorin 3ab 75.62(n)   30267  AF083382.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Sema-1a3
    Sema-2a1
    axon guidance3
    CG4700-PA1
    34(a)
    (best of 4)3
    46.69(n)1
    38.78(a)1
      368461  NM_058159.41  NP_477507.11 


    ENSEMBL Gene Tree for SEMA3A (if available)
    TreeFam Gene Tree for SEMA3A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SEMA3A gene
    SEMA3C2  SEMA4F2  SEMA3E2  SEMA4B2  SEMA4C2  SEMA3F2  SEMA4A2  SEMA4D2  
    SEMA4G2  SEMA3G2  SEMA3D2  
    18/19 SIMAP similar genes for SEMA3A using alignment to 5 protein entries:     SEM3A_HUMAN (see all proteins) (see all similar genes):
    SEMA3D    SEMA3B    SEMA3E    SEMA3F    SEMA3C    SEMA3G
    SEMA5B    SEMA4D variant protein    SEMA4D    SEMA4B    DKFZp686A04130    SEMA6A
    SEMA6C    SEMA6D    SEMA4G    SEMA4F    SEMA4C    SEMA7A

    SEMA3A for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/5178 SNPs in SEMA3A are shown (see all 5178)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    VAR_0362834
    A breast cancer sample4--see VAR_0362832 A T mis40--------
    rs3182407531,2,4
    CHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested186898202(-) ACAACA/GTCGGC 2 H R mis10--------
    rs3182407521,2,4
    CHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested186898211(-) GGACCA/GAAAAC 2 Q R mis10--------
    rs3182407511,2,4
    CHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested186898338(-) CTAAGA/GCCAAA 2 T A mis10--------
    rs1474361811,2,4
    C,FHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested186942230(+) TACGAC/TAATTT 2 I V mis12Minor allele frequency- T:0.01NA EU 5871
    rs360268601,2,4
    C,FHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested186942335(-) ATGTTA/GTAACC 2 I V mis12Minor allele frequency- G:0.00NA 4626
    rs1392951391,2,4
    C,FHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested186997378(+) AAATAT/CTGTCC 2 /N /S mis12Minor allele frequency- C:0.01NA EU 5667
    rs1999796281,2,4
    CHypogonadotropic hypogonadism 16 with or without anosmia (HH16)4 untested187071139(+) ACTCCG/ATTCCT 2 /R /W mis11Minor allele frequency- A:0.00EU 1323
    VAR_0647494
    ----see VAR_0647492 P S mis40--------
    rs1124771911,2
    C--78205068(+) TTTTCC/TTTTTT 1 -- int10--------

    HapMap Linkage Disequilibrium report for SEMA3A (83587659 - 83837659 bp, first 250kb of SEMA3A)

    Structural Variations
         Database of Genomic Variants (DGV) 10/32 variations for SEMA3A (see all 32):    About this table     
    Variant IDTypeSubtypePubMed ID
    esv993949CNV Deletion20482838
    esv2734762CNV Deletion23290073
    esv3024CNV Deletion18987735
    esv2359570CNV Deletion18987734
    esv2584536CNV Deletion19546169
    esv1617967CNV Deletion17803354
    esv2657057CNV Deletion23128226
    esv2086328CNV Deletion18987734
    esv1251085CNV Deletion17803354
    esv2734760CNV Deletion23290073


    Human Gene Mutation Database (HGMD): SEMA3A
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SEMA3A
    DNA2.0 Custom Variant and Variant Library Synthesis for SEMA3A

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 603961    OMIM disorders: --

    UniProtKB/Swiss-Prot: SEM3A_HUMAN, Q14563
  • Hypogonadotropic hypogonadism 16 with or without anosmia (HH16) [MIM:614897]: A disorder characterized by
    absent or incomplete sexual maturation by the age of 18 years, in conjunction with low levels of circulating
    gonadotropins and testosterone and no other abnormalities of the hypothalamic-pituitary axis. In some cases, it
    is associated with non-reproductive phenotypes, such as anosmia, cleft palate, and sensorineural hearing loss.
    Anosmia or hyposmia is related to the absence or hypoplasia of the olfactory bulbs and tracts. Hypogonadism is
    due to deficiency in gonadotropin-releasing hormone and probably results from a failure of embryonic migration of
    gonadotropin-releasing hormone-synthesizing neurons. In the presence of anosmia, idiopathic hypogonadotropic
    hypogonadism is referred to as Kallmann syndrome, whereas in the presence of a normal sense of smell, it has been
    termed normosmic idiopathic hypogonadotropic hypogonadism (nIHH). Note=The disease may be caused by mutations
    affecting distinct genetic loci, including the gene represented in this entry

  • 20/36 diseases for SEMA3A (see all 36):    About MalaCards
    achondrogenesis type ii    achondrogenesis    sponastrime dysplasia    wallerian degeneration
    metaphyseal dysplasia    aphasia    kallmann syndrome    schizophrenia
    retinopathy of prematurity    neuroma    prion disease    frontotemporal dementia
    hirschsprung's disease    alzheimer's disease    paralysis    temporal lobe epilepsy
    malignant mesothelioma    dementia    malignant glioma    atopic dermatitis

    4 diseases from the University of Copenhagen DISEASES database for SEMA3A:
    Spondyloepimetaphyseal dysplasia     Aphasia     Sponastrime dysplasia     Frontotemporal dementia

    SEMA3A for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    Alzheimer's & Parkinson's Diseases Congress (ADPD) 18 - 22 March 2015

    5 Novoseek inferred disease relationships for SEMA3A gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    scar 6.27 2 9932407 (1), 18160633 (1)
    neurodegenerative diseases 0 1 15485501 (1)
    metastasis 0 3 17631638 (1)
    tumors 0 15 16380453 (4), 17631638 (3), 14656993 (1), 17569671 (1)
    cancer 0 6 19817889 (3), 14500350 (1), 17390026 (1), 19465334 (1)

    Genetic Association Database (GAD): SEMA3A
    Human Genome Epidemiology (HuGE) Navigator: SEMA3A (4 documents)

    Export disorders for SEMA3A gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SEMA3A gene, integrated from 9 sources (see all 202):
    (articles sorted by number of sources associating them with SEMA3A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The semaphorin genes encode a family of transmembrane and secreted growth cone guidance molecules. (PubMed id 8269517)1, 2, 3, 9 Kolodkin A.L.... Goodman C.S. (1993)
    2. SEMA3A deletion in a family with Kallmann syndrome val idates the role of semaphorin 3A in human puberty and olfactory system developme nt. (PubMed id 22416012)1, 2 Young J....Guiochon-Mantel A. (2012)
    3. SEMA3A, a gene involved in axonal pathfinding, is muta ted in patients with Kallmann syndrome. (PubMed id 22927827)1, 2 Hanchate N.K....Dode C. (2012)
    4. Genome-wide association study in multiple human prion diseases suggests genetic risk factors additional to PRNP. (PubMed id 22210626)1, 4 Mead S....Collinge J. (2012)
    5. Genome-wide association study of the child behavior c hecklist dysregulation profile. (PubMed id 21784300)1, 4 Mick E....Faraone S.V. (2011)
    6. GWAS findings for human iris patterns: associations wi th variants in genes that influence normal neuronal pattern development. (PubMed id 21835309)1, 4 Larsson M....Medland S.E. (2011)
    7. Candidate gene analysis of semaphorins in patients wi th Alzheimer's disease. (PubMed id 19957197)1, 4 Villa C....Galimberti D. (2010)
    8. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (2010)
    9. The DNA sequence of human chromosome 7. (PubMed id 12853948)1, 2 Hillier L.W.... Wilson R.K. (2003)
    10. Murine semaphorin D/collapsin is a member of a diverse gene family and creates domains inhibitory for axonal extension. (PubMed id 7748561)1, 3 Puschel A.W....Betz H. (1995)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10371 HGNC: 10723 AceView: SEMA3A Ensembl:ENSG00000075213 euGenes: HUgn10371
    ECgene: SEMA3A Kegg: 10371 H-InvDB: SEMA3A

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SEMA3A Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SEMA3A gene:
    Search GeneIP for patents involving SEMA3A

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
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    About This Section

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