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

SEMA3A Gene

protein-coding   GIFtS: 64
GCID: GC07M083587

sema domain, immunoglobulin domain (Ig), short basic domain,...


(Previous symbol: SEMAD)
 Explore 35 diseases affiliated with
SEMA3A via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for SEMA3A    

Aliases
for SEMA3A gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Sema Domain, Immunoglobulin Domain (Ig), Short Basic Domain, Secreted,
(Semaphorin) 3A1 2
     Hsema-III2
SEMAD1 2 3     SEMAIII2
Hsema-I1 2     SEMAL2
SEMA11 2     Collapsin 12
SemD1 2     Semaphorin D2
Coll-11     Semaphorin L2
Semaphorin III2 3     Semaphorin-3A1
COLL12     Sema III3

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


Summaries
for SEMA3A gene

(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:
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)

UniProtKB/Swiss-Prot: SEM3A_HUMAN, Q14563
Function: 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 (By similarity)

Gene Wiki entry for SEMA3A


Genomic Views
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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000007.13  NC_018918.1  NT_007933.15  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 plasmid: SEMA3A 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     

Proteins
for SEMA3A gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
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

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q14563

    • SEMA3A Protein expression data from MOPED and PaxDb:    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)
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse OriGene full length recombinant human proteins expressed in human HEK293 cells
    OriGene Protein Over-expression Lysate: SEMA3A
    OriGene Custom Protein Services for SEMA3A 
    GenScript Custom Purified and Recombinant Proteins Services for SEMA3A
    Novus Biologicals SEMA3A Protein
    Novus Biologicals SEMA3A Lysate
    Sino Biological Recombinant Protein for SEMA3A
    Browse ProSpec Recombinant Proteins
    Uscn 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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    R&D Systems Antibodies for SEMA3A (Semaphorin 3A)
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    Abcam antibodies for SEMA3A 
    Uscn Antibodies for SEMA3A
    ThermoFisher Antibodies for SEMA3A

    Assay Products for SEMA3A: 
    Browse Kits and Assays available from EMD Millipore
    OriGene Custom Immunoassay Development
    Browse OriGene Fluorogenic Cell Assay Kits
    R&D Systems Multiplex/Array Assay Kits & Reagents for SEMA3A (Semaphorin 3A)
    GenScript Custom Assay Services for SEMA3A
    Browse Enzo Life Sciences for kits & assays
    Uscn ELISAs and CLIAs for SEMA3A

    Protein Domains /
    Families
    for SEMA3A gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    SEMA3A for domains           About GeneDecksing

    5/8 InterPro domains/families (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 families:
    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


    Function
    for SEMA3A gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, 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, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SEM3A_HUMAN, Q14563
    Function: 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 (By similarity)

         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 Substantia Nigra pars Compacta, Embryonic Dopaminergic Neurons in Ventral Tegmental Area

         Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004872receptor activity IEA--
    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:
         Mouse knock-outs for SEMA3A: Sema3atm1.1Tyag Sema3atm1Mcf
       inGenious Targeting Laboratory - Customizable classic, inducible, and humanized mouse model solutions for SEMA3A 

    miRNA
    Products:            		 OriGene 3'-UTR Clone: SEMA3A
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SEMA3A
    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 plasmid: SEMA3A 3' UTR sequence
    Inhib. RNA
    Products:            		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SEMA3A (see all 7)
    OriGene shRNA RFP: SEMA3A
    OriGene siRNA: SEMA3A
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SEMA3A
    Sirion Biotech Custom design and validation of potent shRNA sequences against SEMA3A 

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for SEMA3A
    Sirion Biotech Customized adenovirus for overexpression of SEMA3A 
    Sirion Biotech Customized adenovirus for potent knockdown of SEMA3A

    Clone
    Products:             		Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SEMA3A (see all 3)
    OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SEMA3A
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling 
    GenScript: all cDNA clones in your preferred vector: SEMA3A (NM_006080)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SEMA3A
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SEMA3A 

    Cell Line
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    Search LifeMap BioReagents cell lines for SEMA3A
    Sirion Biotech Customized stable knockdown cell line services for SEMA3A 
    Sirion Biotech Customized inducible knockdown cell line services for SEMA3A
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    Sirion Biotech Customized inducible overexpressing cell line services for SEMA3A

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


    Pathways & Interactions
    for SEMA3A gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways - 5/19 super-pathways (see all 19) About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Apoptotic Pathways in Synovial Fibroblasts
    8/14 pathways (see all 14)
    		Apoptotic Pathways in Synovial Fibroblasts1.00
    		ERK5 Signaling0.61
    		p53 Mediated Apoptosis0.84
    		eIF2 Pathway0.60
    		Mitochondrial Apoptosis0.73
    		Rac1 Pathway0.58
    		Telomerase Components in Cell Signaling0.72
    		Nuclear Receptor Activation by Vitamin-A0.57
    2GPCR Pathway
    		GPCR Pathway1.00
    		Estrogen Pathway0.55
    		Ras Pathway0.62
    		Pancreatic Adenocarcinoma0.55
    		Breast Cancer Regulation by Stathmin10.58
    		Paxillin Interactions0.53
    		NFAT in Immune Response0.58
    3Rho Family GTPases
    		Rho Family GTPases1.00
    		MAPK Signaling0.51
    		ERK Signaling0.61
    		ILK Signaling0.45
    		Molecular Mechanisms of Cancer0.51
    4TGF-Beta Pathway
    		TGF-Beta Pathway1.00
    		JAK-STAT Pathway0.57
    		MAPK Family Pathway0.60
    		JNK Pathway0.50
    5Nanog in Mammalian ESC Pluripotency
    		Nanog in Mammalian ESC Pluripotency1.00
    		14-3-3 Induced Intracellular Signaling0.59
    		GSK3 Signaling0.61
    		eNOS Signaling0.48

    Pathway sources
    See GeneCards unified pathways
    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): 5/15 biological process terms (GO ID links to tree view) (see all 15):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002027regulation of heart rate IEA--
    GO:0006915apoptotic process IEA--
    GO:0007411axon guidance TAS19909241
    GO:0007413axonal fasciculation IEA--
    GO:0010633negative regulation of epithelial cell migration IEA--

    SEMA3A for ontologies           About GeneDecksing



    Drugs & Compounds
    for SEMA3A gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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
    5 Novoseek 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 

    Transcripts
    for SEMA3A gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    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, Sirion Biotech, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, 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

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat SEMA3A
    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 plasmid: SEMA3A 3' UTR sequence
    Inhib. RNA
    Products:             		Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for SEMA3A (see all 7)
    OriGene shRNA RFP: SEMA3A
    OriGene siRNA: SEMA3A
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SEMA3A
    Sirion Biotech Custom design and validation of potent shRNA sequences against SEMA3A 
    Clone
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    GenScript: all cDNA clones in your preferred vector: SEMA3A (NM_006080)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SEMA3A
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SEMA3A 
    Primer
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    Browse OriGene validated miRNA SYBR primer pairs
    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SEMA3A
      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SEMA3A
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SEMA3A

    Additional cDNA sequence: 

    AK289954.1 BC111416.1 L26081.1 

    3 DOTS entries:

    DT.205342  DT.75107544  DT.100831605 

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

    BM711125 BI870437 BQ018643 BM670627 AA861394 BX283116 AA450244 BU687513 
    AI240274 BQ007348 BQ447821 AI734867 AW079904 BM729169 AI671991 BM090555 
    CF597187 AA284739 NM_006080 BE552070 CD216784 BM723807 N51438 L26081 

    GeneLoc Exon Structure


    Expression
    for SEMA3A gene

    (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)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --
    SEMA3A Expression
    About this image

    SEMA3A expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table

    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    KidneyUreteric BudUreteric Bud CellsKidney
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 5 LifeMap Cells 
    NameCategory
    PureStem™ mesenchymal progenitor SM30 (Embryonic Progenitor Cell)Adipose, Bone, Cartilage
    PureStem™ mesenchymal progenitor 7SMOO32 (Embryonic Progenitor Cell)Adipose, Bone, Cartilage
    PureStem™ progenitor EN27 (Embryonic Progenitor Cell)
    PureStem™ progenitor SM22 (Embryonic Progenitor Cell)
    Adult human kidney epithelial cells (Primary Cell)Kidney

    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

    Primer
    Products:    		 OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SEMA3A
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    SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SEMA3A
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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
    for SEMA3A gene

    (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 6/19 species (see all 19)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    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
    		 --
    		 89(a)
    		 1 ↔ 1
    		 5(87899979-88047936)
    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 
    worm
    (Caenorhabditis elegans)    		 Secernentea mab-206
    smp-26
    		 SeMaPhorin related family member (smp-2)
    		 22(a)
    17(a)
    		 possible ortholog
    possible ortholog
    		 I(1644590-1651382)
    I(3667127-3671705)


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

    Paralogs
    for SEMA3A gene

    (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  SEMA3F2  SEMA4C2  SEMA4A2  SEMA4G2  
    SEMA4D2  SEMA3G2  SEMA3D2  
    18/20 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    SEMA6B    SEMA4D variant protein    SEMA4D    SEMA4B    DKFZp686A04130
    SEMA6A    SEMA6C    SEMA6D    SEMA4G    SEMA4F    SEMA4C

    SEMA3A for paralogs           About GeneDecksing



    Genomic Variants
    for SEMA3A gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/4398 NCBI SNPs in SEMA3A are shown (see all 4398)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 7 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs353618921,2
    		F--78215395(+) AGAGAGA/-TGCAT 1 -- int13Minor allele frequency- -:0.30CSA 10
    rs69781821,2
    		C,F,A,H--78240951(+) TTTAGC/TACTTA 1 -- int110Minor allele frequency- T:0.18NS EA NA WA 630
    rs26917011,2
    		C,A,H--78300782(-) tagacC/Tggagc 1 -- int11Minor allele frequency- T:0.50NA 2
    rs25270421,2
    		C,A,H--78300814(+) cagaaG/Catggt 1 -- int14Minor allele frequency- C:0.14NA WA EA 360
    rs29061931,2
    		C--78301148(+) tctgaG/Tatcaa 1 -- int12Minor allele frequency- T:0.25NA 4
    rs96909481,2
    		C,A--78301175(+) gaggcG/Aggggg 1 -- int1 trp33Minor allele frequency- A:0.48NA WA 240
    rs45013181,2
    		A--78301699(-) AGAGGA/CACTCT 1 -- int10--------
    rs133120721,2
    		C--78301859(+) ctttgC/Aaaaaa 1 -- int11Minor allele frequency- A:0.50NA 2
    rs1134492241,2
    		C--78414103(+) CAACCT/-TTTTT 1 -- int11Minor allele frequency- -:0.00CSA 2
    rs672278611,2
    		C--78432761(+) ATTAA-/GGGGGG 1 -- int11Minor allele frequency- G:0.00NA 2

    HapMap Linkage Disequilibrium report for SEMA3A (83587659 - 83837659 bp, first 250kb of SEMA3A)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 10 variations for SEMA3A
         4 CNVs: 38690 94658 100009 52299
         6 Indels: 28699 28697 41986 47398 40997 62685
    Human Gene Mutation Database (HGMD): SEMA3A

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    Disorders / Diseases
    for SEMA3A gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    SEMA3A for disorders           About GeneDecksing

    OMIM gene information: 603961    OMIM disorders: --

    20/35 diseases for SEMA3A (see all 35):    About MalaCards
    semd    alzheimer's disease    achondrogenesis type ii    schizophrenia
    temporal lobe epilepsy    sponastrime dysplasia    wallerian degeneration    metaphyseal dysplasia
    frontotemporal dementia    achondrogenesis    atopic dermatitis    neurodegenerative disease
    malignant mesothelioma    aphasia    neuronitis    hirschsprung's disease
    malignant glioma    neuroma    multiple myeloma    dermatitis

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

    5 Novoseek 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)

    Human Genome Epidemiology (HuGE) Navigator: SEMA3A (4 documents)

    Export disorders for SEMA3A gene to outside databases

    Publications
    for SEMA3A gene

    (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 187):
    (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. The DNA sequence of human chromosome 7. (PubMed id 12853948)1, 2 Hillier L.W.... Wilson R.K. (2003)
    3. 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)
    4. Negative regulation of platelet function by a secreted cell repulsive protein, semaphorin 3A. (PubMed id 15831706)1, 9 Kashiwagi H....Kanakura Y. (2005)
    5. Semaphorin-3A and semaphorin-3F work together to repel endothelial cells and to inhibit their survival by induction of apoptosis. (PubMed id 17569671)1, 9 Guttmann-Raviv N....Neufeld G. (2007)
    6. Expression of semaphorin 3A and its receptors in the human intervertebral disc: potential role in regulating neural ingrowth in the degenerate intervertebral disc. (PubMed id 20051117)1, 9 Tolofari S.K....Hoyland J.A. (2010)
    7. Differential expression of the semaphorin 3A pathway in prostatic cancer. (PubMed id 19817889)1, 9 Yacoub M....Fromont G. (2009)
    8. Semaphorin-3A is expressed by tumor cells and alters T-cell signal transduction and function. (PubMed id 16380453)1, 9 Catalano A....Procopio A. (2006)
    9. A role for semaphorin 3A signaling in the degeneration of hippocampal neurons during Alzheimer's disease. (PubMed id 15485501)1, 9 Good P.F....Kohtz D.S. (2004)
    10. The axonal chemorepellant semaphorin 3A is increased in the cerebellum in schizophrenia and may contribute to its synaptic pathology. (PubMed id 12610647)1, 9 Eastwood S.L....Harrison P.J. (2003)

    External Searches for SEMA3A gene

    (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)

    Genome Databases showing SEMA3A gene

    (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

    Other Databases showing SEMA3A gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing SEMA3A gene

    (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

    Intellectual Property
    for SEMA3A gene

    (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



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    About This Section

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