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

TSPAN9 Gene

protein-coding   GIFtS: 51
GCID: GC12P003186

tetraspanin 9
 Explore 2 diseases affiliated with
TSPAN9 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for TSPAN9    

Aliases
for TSPAN9 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Tetraspanin 91 2     New EST Tetraspan 52
NET52 3 5     Tetraspanin-91
NET-51 2     Transmembrane 4 Superfamily Member Tetraspan NET-52
Tetraspan NET-52 3     Tspan-93
PP10572     Tspan-93

External Ids:    HGNC: 216401   Entrez Gene: 108672   Ensembl: ENSG000000111057   OMIM: 6131375   UniProtKB: O759543   

Export aliases for TSPAN9 gene to outside databases

Previous GC identifer: GC12P003057


Summaries
for TSPAN9 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 TSPAN9:
The protein encoded by this gene is a member of the transmembrane 4 superfamily, also known as the tetraspanin family.
Most of these members are cell-surface proteins that are characterized by the presence of four hydrophobic domains.
The proteins mediate signal transduction events that play a role in the regulation of cell development, activation,
growth and motility. Alternatively spliced transcripts encoding the same protein have been identified. (provided by
RefSeq, Nov 2009)




Genomic Views
for TSPAN9 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_000012.11  NC_018923.1  NT_009759.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TSPAN9 gene promoter:
         AML1a   FOXO3   POU6F1 (c2)   LCR-F1   Tal-1beta   FOXO3b   E47   AREB6   FOXO3a   RSRFC4   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): TSPAN9 promoter sequence
   Search SABiosciences Chromatin IP Primers for TSPAN9

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TSPAN9


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

Entrez Gene cytogenetic band: 12p13.33-p13.32   Ensembl cytogenetic band:  12p13.33   HGNC cytogenetic band: 12p13.33-p13.32

TSPAN9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TSPAN9 gene location

GeneLoc information about chromosome 12         GeneLoc Exon Structure

GeneLoc location for GC12P003186:  view genomic region     (about GC identifiers)

Start:
 3,186,521 bp from pter      End:
 3,395,730 bp from pter
Size:
 209,210 bases      Orientation:
 plus strand

Proteins
for TSPAN9 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: TSN9_HUMAN, O75954 (See protein sequence)
Recommended Name: Tetraspanin-9  
Size: 239 amino acids; 26779 Da
Subunit: Found in a complex with GP6 (By similarity)
Subcellular location: Membrane; Multi-pass membrane protein (By similarity). Note=Colocalizes with GP6 in tetraspanin
microdomains on the platelet surface (By similarity)
Secondary accessions: D3DUQ7 Q53FV2 Q6FGJ8

Explore the universe of human proteins at neXtProt for TSPAN9: NX_O75954

Post-translational modifications:

  • Glycosylated (By similarity)1
  • View neXtProt modification sites for NX_O75954

    • TSPAN9 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001161792.1  NP_006666.1  

    ENSEMBL proteins: 
     ENSP00000412908   ENSP00000011898   ENSP00000384488   ENSP00000444799  

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    Uscn Proteins for TSPAN9

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005624membrane fraction ----
    GO:0005887integral to plasma membrane TAS10719184
    GO:0016020membrane TAS10719184
    GO:0016021integral to membrane ----


    TSPAN9 for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for TSPAN9 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    TSPAN9 for domains           About GeneDecksing

    4 InterPro domains/families:
     IPR018499 Tetraspanin/Peripherin
     IPR018503 Tetraspanin_CS
     IPR000301 Tetraspanin
     IPR008952 Tetraspanin_EC2

    Graphical View of Domain Structure for InterPro Entry O75954

    ProtoNet protein and cluster: O75954

    1 Blocks protein family: IPB000301 Transmembrane four family signature

    UniProtKB/Swiss-Prot: TSN9_HUMAN, O75954
    Similarity: Belongs to the tetraspanin (TM4SF) family


    Function
    for TSPAN9 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TSPAN9
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    Gene Editing
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    Clone
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    In Situ Assay
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    3 GenomeRNAi human phenotypes for TSPAN9:
     Decreased nuclei size in G2M  Increased gamma-H2AX phosphory  Increased number of cells in m 


    Pathways & Interactions
    for TSPAN9 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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TSPAN9

    STRING Interaction Network Preview (showing 1 interactants - click image to see more details)

    5/25 Interacting proteins for TSPAN9 (O759542 ENSP000000118984) via UniProtKB, MINT, STRING, and/or I2D (see all 25)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ADAM10O146722MINT-8407185
    ANXA6P081332MINT-8407185
    C14orf166BQ0VAA22MINT-8407185
    CD19P153912MINT-8407185
    CD63P089622MINT-8407185
    About this table

    Drugs & Compounds
    for TSPAN9 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TSPAN9
    Search CenterWatch for drugs/clinical trials and news about TSPAN9 / TSN9 

    Transcripts
    for TSPAN9 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, 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 TSPAN9 gene (2 alternative transcripts): 
    NM_001168320.1  NM_006675.4  

    Unigene Cluster for TSPAN9:

    Tetraspanin 9
    Hs.504517  [show with all ESTs]
    Unigene Representative Sequence: NM_006675
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000444315 ENST00000011898(uc001qlp.3) ENST00000539631 ENST00000407263
    ENST00000431374 ENST00000492305 ENST00000537971(uc021qtd.1)

    miRNA
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    hsa-miR-1321 hsa-miR-106a hsa-miR-15a hsa-miR-29a hsa-miR-486-3p hsa-miR-218 hsa-miR-519a hsa-miR-877*
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    Inhib. RNA
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    OriGene shRNA RFP: TSPAN9
    OriGene siRNA: TSPAN9
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    Clone
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    Additional cDNA sequence: 

    AF089749.1 AF217967.1 AK027366.1 AK223179.1 AY523992.1 BC034280.1 BC071881.1 CR542109.1 

    14 DOTS entries:

    DT.100716826  DT.418048  DT.95165093  DT.105181  DT.97800080  DT.121136859  DT.121136980  DT.121136837 
    DT.121136817  DT.121136929  DT.121136939  DT.95357293  DT.97822729  DT.97838722 

    24/276 AceView cDNA sequences (see all 276):

    CB142032 BX952491 AI581275 BI962534 AL545465 N39943 AW873570 BU741885 
    Z38375 BM981813 AI262559 CB216628 BU846256 AA775239 BM998363 BM707851 
    AA977988 CF529406 BM352192 BC071881 BQ668883 AI868873 BG740937 BM704666 

    GeneLoc Exon Structure


    Expression
    for TSPAN9 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

    TSPAN9 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TTTTTAAATA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    TSPAN9 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    8 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    Gut TubeMidgutMidgut Endoderm CellsEndoderm
    LimbZeugopodMesenchymal Condensate CellsBone, Cartilage
    BoneZeugopod Long BoneBone
    BrainMedulla OblongataBrain
    Gut TubeMidgutGut Tube
    LimbAutopodLimb
    LimbZeugopodLimb
    Neural TubeMetencephalonNeural Tube
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See TSPAN9 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TSPAN9

    SOURCE GeneReport for Unigene cluster: Hs.504517

    UniProtKB/Swiss-Prot: TSN9_HUMAN, O75954
    Tissue specificity: Expressed in megakaryocytes and platelets (at protein level)

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    Orthologs
    for TSPAN9 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 TSPAN9 gene from 5/20 species (see all 20)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves TSPAN91 tetraspanin 9 77.27(n)
    87.45(a)    		   418263  XM_416488.3  XP_416488.2 
    lizard
    (Anolis carolinensis)    		 Reptilia TSPAN96
    		 --
    		 86(a)
    		 1 ↔ 1
    		 5(81316439-81343669)
    zebrafish
    (Danio rerio)    		 Actinopterygii tspan9a1 tetraspanin 9a 75.87(n)
    81.17(a)    		   555341  XM_677831.2  XP_682923.2 
    fruit fly
    (Drosophila melanogaster)    		 Insecta Tsp5D1 Tetraspanin 5D 49.85(n)
    32.73(a)    		   31540  NM_001144691.2  NP_001138163.1 
    worm
    (Caenorhabditis elegans)    		 Secernentea tsp-86
    tsp-146
    		 TetraSPanin family member (tsp-14)
    		 24(a)
    13(a)
    		 possible ortholog
    possible ortholog
    		 X(14726556-14729412)
    X(4866653-4874627)


    ENSEMBL Gene Tree for TSPAN9 (if available)
    TreeFam Gene Tree for TSPAN9 (if available) 

    Paralogs
    for TSPAN9 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TSPAN9 gene
    CD1512  TSPAN12  CD372  TSPAN62  TSPAN32  CD632  CD532  CD822  
    TSPAN182  TSPAN72  TSPAN42  TSPAN112  ENSG000002503492  TSPAN82  
    18/22 SIMAP similar genes for TSPAN9 using alignment to 3 protein entries:     TSN9_HUMAN (see all proteins) (see all similar genes):
    TSPAN4    CD53    CD151    BTCC-1    CD63    CD37
    TSPAN3    TSPAN2    TSPAN8    CD82    TSPAN6    TSPAN11
    TSPAN1    TSPAN18    TSPAN33    TM4SF2    CD9    TSPAN7

    TSPAN9 for paralogs           About GeneDecksing



    Genomic Variants
    for TSPAN9 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

    10/4788 NCBI SNPs in TSPAN9 are shown (see all 4788)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 12 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs750171391,2
    		C--3184623(+) TCCCAA/GCCGAT 2 -- us2k10--------
    rs749052291,2
    		C--3184625(+) CCAGCA/CGATAA 2 -- us2k10--------
    rs778602291,2
    		C--3184628(+) GCCGAG/TAAAAG 2 -- us2k10--------
    rs757869961,2
    		C--3184631(+) GATAAA/TAGCAG 2 -- us2k10--------
    rs1446215111,2
    		--3184682(+) CGGCTA/TCTCCC 2 -- us2k10--------
    rs1398669581,2
    		--3184705(+) GTCCAA/GTGGTC 2 -- us2k10--------
    rs1381441321,2
    		C,--3184752(+) ATATC-/TCTT  
                TCCCT     		2 -- us2k10--------
    rs1453857041,2
    		--3184803(+) CAACTC/TTGCCG 2 -- us2k10--------
    rs1476887271,2
    		--3184808(+) CTGCCA/GCAGTG 2 -- us2k10--------
    rs1861358721,2
    		--3184911(+) GAATAG/TTTTCC 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for TSPAN9 (3186521 - 3395730 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 13 variations for TSPAN9
         9 CNVs: 71437 86150 49056 75904 71436 71435 5653 0161 43308
         4 Indels: 61202 24993 33553 33554

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    Disorders / Diseases
    for TSPAN9 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    TSPAN9 for disorders           About GeneDecksing

    OMIM gene information: 613137    OMIM disorders: --

    2 diseases for TSPAN9:    About MalaCards
    fallopian tube carcinoma    carcinoma

    1 disease from the University of Copenhagen DISEASES database for TSPAN9:
    Fallopian tube carcinoma
    Human Genome Epidemiology (HuGE) Navigator: TSPAN9 (4 documents)

    Export disorders for TSPAN9 gene to outside databases

    Publications
    for TSPAN9 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 TSPAN9 gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with TSPAN9)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Sequence and expression of seven new tetraspans. (PubMed id 10719184)1, 2, 3 Serru V.... Rubinstein E. (2000)
    2. Identification of Tspan9 as a novel platelet tetraspanin and the collagen receptor GPVI as a component of tetraspanin microdomains. (PubMed id 18795891)1, 2 Protty M.B.... Tomlinson M.G. (2009)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    4. Complexes of tetraspanins with integrins: more than meets the eye. (PubMed id 11739647)1, 3 Berditchevski F. (2001)
    5. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    6. Assessment of a polymorphism of SDK1 with hypertensio n in Japanese Individuals. (PubMed id 19851296)1 Oguri M....Yamada Y. (2010)
    7. Association of genetic variants with hemorrhagic stro ke in Japanese individuals. (PubMed id 20198315)1 Yoshida T....Yamada Y. (2010)
    8. Transcriptomic and genetic studies identify IL-33 as a candidate gene for Alzheimer's disease. (PubMed id 19204726)1 Chapuis J....Lambert J.C. (2009)
    9. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    10. Functional relevance of tetraspanin CD9 in vascular s mooth muscle cell injury phenotypes: a novel target for the prevention of neoin timal hyperplasia. (PubMed id 18799160)1 Kotha J....Jennings L.K. (2009)

    External Searches for TSPAN9 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
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    Genome Databases showing TSPAN9 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 10867 HGNC: 21640 AceView: NET-5andPP1057 Ensembl:ENSG00000011105 euGenes: HUgn10867
    ECgene: TSPAN9 H-InvDB: TSPAN9

    Other Databases showing TSPAN9 gene

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    Specialized Databases showing TSPAN9 gene

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    PharmGKB entry for TSPAN9 Pharmacogenomics, SNPs, Pathways

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