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

TMEM9B Gene

protein-coding   GIFtS: 48
GCID: GC11M008969

TMEM9 Domain Family, Member B

(Previous name: chromosome 11 open reading frame 15)
(Previous symbol: C11orf15)
  See related disease
at  

(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
TMEM9 Domain Family, Member B1 2
C11orf151 2 3
Chromosome 11 Open Reading Frame 151
Transmembrane Protein 9B2

External Ids:    HGNC: 11681   Entrez Gene: 566742   Ensembl: ENSG000001753487   UniProtKB: Q9NQ343   

Export aliases for TMEM9B gene to outside databases

Previous GC identifers: GC11M008926 GC11M008927 GC11M008639


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

GeneCards Summary for TMEM9B Gene: 
TMEM9B (TMEM9 domain family, member B) is a protein-coding gene. Diseases associated with TMEM9B include wegener's granulomatosis. GO annotations related to this gene include signal transducer activity. An important paralog of this gene is TMEM9.


(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_000011.9  NT_009237.18  NC_018922.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TMEM9B gene promoter:
         Nkx3-1   Nkx3-1 v4   Elk-1   HSF1 (long)   Nkx3-1 v1   AREB6   Nkx3-1 v2   HSF1short   Sox9   Nkx3-1 v3   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTMEM9B promoter sequence
   Search SABiosciences Chromatin IP Primers for TMEM9B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TMEM9B


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

Entrez Gene cytogenetic band: 11p15.3   Ensembl cytogenetic band:  11p15.4   HGNC cytogenetic band: 11p15.3

TMEM9B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TMEM9B gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M008969:  view genomic region     (about GC identifiers)

Start:
8,968,840 bp from pter      End:
8,986,558 bp from pter
Size:
17,719 bases      Orientation:
minus strand

(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: TMM9B_HUMAN, Q9NQ34 (See protein sequence)
Recommended Name: Transmembrane protein 9B precursor  
Size: 198 amino acids; 22531 Da
Subcellular location: Membrane; Single-pass membrane protein (Potential)

Explore the universe of human proteins at neXtProt for TMEM9B: NX_Q9NQ34

Explore proteomics data for TMEM9B at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9NQ34

  • TMEM9B Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TMEM9B Protein Expression
    REFSEQ proteins: NP_065695.1  
    ENSEMBL proteins: 
     ENSP00000311842   ENSP00000433361   ENSP00000431487   ENSP00000432373   ENSP00000434961  

    Human Recombinant Protein Products for TMEM9B: 
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    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for TMEM9B 

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral to membrane IEA--

    TMEM9B for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR008853 TMEM9

    Graphical View of Domain Structure for InterPro Entry Q9NQ34

    ProtoNet protein and cluster: Q9NQ34

    1 Blocks protein domain: IPB008853 TMEM9

    UniProtKB/Swiss-Prot: TMM9B_HUMAN, Q9NQ34
    Similarity: Belongs to the TMEM9 family


    TMEM9B 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

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004871signal transducer activity IMP12761501
         
    TMEM9B for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for TMEM9B:
     Decreased viability of wild-ty  Decreased viability with pacli  Increased gamma-H2AX phosphory 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for TMEM9B 
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    miRNA
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    miRTarBase miRNAs that target TMEM9B:
    hsa-mir-373 (MIRT003846)

    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TMEM9B
    8/39 QIAGEN miScript miRNA Assays for microRNAs that regulate TMEM9B (see all 39):
    hsa-miR-2052 hsa-miR-4328 hsa-miR-128 hsa-miR-301a hsa-miR-632 hsa-miR-218 hsa-miR-130b hsa-miR-181b
    SwitchGear 3'UTR luciferase reporter plasmidTMEM9B 3' UTR sequence
    Inhib. RNA
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    (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



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TMEM9B

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    3 Interacting proteins for TMEM9B (Q9NQ342, 3 ENSP000003118424) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DDX24Q9GZR72, 3MINT-65423 I2D: score=4 
    UBCENSP000003448184STRING: ENSP00000344818
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007165signal transduction IMP12761501
    GO:0043123positive regulation of I-kappaB kinase/NF-kappaB cascade IMP12761501

    TMEM9B 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TMEM9B (TMM9B)

    Search CenterWatch for drugs/clinical trials and news about TMEM9B / TMM9B

    (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 TMEM9B gene: 
    NM_020644.1  

    Unigene Cluster for TMEM9B:

    TMEM9 domain family, member B
    Hs.501853  [show with all ESTs]
    Unigene Representative Sequence: BC040124
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000309134 ENST00000534025(uc001mhe.1 uc001mhf.1 uc010rbt.1)
    ENST00000525069 ENST00000528117 ENST00000530136
    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TMEM9B
    8/39 QIAGEN miScript miRNA Assays for microRNAs that regulate TMEM9B (see all 39):
    hsa-miR-2052 hsa-miR-4328 hsa-miR-128 hsa-miR-301a hsa-miR-632 hsa-miR-218 hsa-miR-130b hsa-miR-181b
    SwitchGear 3'UTR luciferase reporter plasmidTMEM9B 3' UTR sequence
    Inhib. RNA
    Products:
         
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TMEM9B
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TMEM9B

    Additional mRNA sequence: 

    AB097017.1 AK074677.1 AK300712.1 AK310723.1 AK313065.1 AK316216.1 AY359069.1 BC015884.1 
    BC040124.1 

    15 DOTS entries:

    DT.417054  DT.100796706  DT.100796705  DT.100796709  DT.91647506  DT.99982296  DT.75153424  DT.99933859 
    DT.91744905  DT.100768282  DT.100796704  DT.100796707  DT.95288823  DT.40219152  DT.86840803 

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

    AI380868 AI348157 AW469376 BM986977 AA650492 BI907871 AI276159 BF057137 
    Z40957 AA505360 AI075212 AA761523 AA771952 BI756642 CR613664 BU726117 
    BM271986 AI569369 AA433929 CR605470 AA782389 CR609980 BX403296 NM_020644 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for TMEM9B    About this scheme

    ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8a · 8b · 8c
    SP1:        -     -     -     -     -                             -                     
    SP2:                          -     -                             -                     
    SP3:                                                                                    
    SP4:                          -     -     -                       -                     
    SP5:                          -     -     -                                             


    ECgene alternative splicing isoforms for TMEM9B

    (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

    TMEM9B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TACTGTGATG
    TMEM9B Expression
    About this image


    See TMEM9B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TMEM9B

    SOURCE GeneReport for Unigene cluster: Hs.501853
        SABiosciences Custom PCR Arrays for TMEM9B
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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TMEM9B

    (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 TMEM9B 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 Tmem9b1 , 5 TMEM9 domain family, member B1, 5 89.39(n)1
    94.95(a)1
      7 (57.47 cM)5
    567861  NM_020050.11  NP_064434.11 
     1097358345 
    chicken
    (Gallus gallus)
    Aves TMEM9B1 TMEM9 domain family, member B 78.84(n)
    89.95(a)
      423051  XM_420984.3  XP_420984.1 
    lizard
    (Anolis carolinensis)
    Reptilia TMEM9B6
    Uncharacterized protein
    78(a)
    1 ↔ 1
    1(64503219-64509713)
    zebrafish
    (Danio rerio)
    Actinopterygii wufd47d022 wufd47d02 78.53(n)   325931  BC050159.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG11616
    --
    21(a)
    1 → many
    3R(1180822-1182467)
    worm
    (Caenorhabditis elegans)
    Secernentea R12C12.66
    Protein R12C12.6, isoform a
    21(a)
    1 → many
    II(6046287-6047867)


    ENSEMBL Gene Tree for TMEM9B (if available)
    TreeFam Gene Tree for TMEM9B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TMEM9B gene
    TMEM92  
    1 SIMAP similar gene for TMEM9B using alignment to 6 protein entries:     TMM9B_HUMAN (see all proteins):
    TMEM9

    TMEM9B 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

    10/423 SNPs in TMEM9B are shown (see all 423)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1407820151,2
    C--8892876(+) TTTTT-/TAATAATA 1 -- cds10--------
    rs352967891,2
    C--8892881(+) TAATA-/ATACTAAC 1 -- cds10--------
    rs1177158091,2
    C,F--8892916(+) TGTAGG/ATGCTT 1 -- ds50011Minor allele frequency- A:0.03NA 120
    rs1873832901,2
    --8893086(+) ATCCAC/TCCCCA 1 -- ds50010--------
    rs1920594961,2
    --8893090(+) ACCCCC/GAAATT 1 -- ds50010--------
    rs767292451,2
    C,F--8893145(+) TTTTAC/TGGTTA 1 -- ds50011Minor allele frequency- T:0.03EA 120
    rs1117012181,2
    F--8893232(+) GGGAGG/AAGGAA 1 -- ds50012Minor allele frequency- A:0.07CSA WA 120
    rs350442611,2
    C--8893308(+) CAAAGAGGA    
       CAT
    /-
    AGGAA
    1 -- ut311Minor allele frequency- -:0.50CSA 2
    rs1119564021,2
    C--8893312(+) GAGGAA/CATAGG 1 -- ut310--------
    rs1126472981,2
    C--8893313(+) AGGACA/C/GTAGGA 2 -- ut310--------

    HapMap Linkage Disequilibrium report for TMEM9B (8968840 - 8986558 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for TMEM9B:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv435923CNV Deletion17901297
    nsv832062CNV Loss17160897
    essv24306CNV CNV17122850
    nsv499766OTHER Inversion21111241
    nsv7215OTHER Inversion18451855

    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    2 diseases for TMEM9B:    About MalaCards
    wegener's granulomatosis    


    TMEM9B for disorders           About GeneDecksing


    Export disorders for TMEM9B 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 TMEM9B gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with TMEM9B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Comparative genomic sequencing reveals a strikingly similar architecture of a conserved syntenic region on human chromosome 11p15.3 (including gene ST5) and mouse chromosome 7. (PubMed id 11528127)1, 2, 3 Amid C.... Schmidt E.R. (2001)
    2. 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)
    3. Signal peptide prediction based on analysis of experimentally verified cleavage sites. (PubMed id 15340161)1, 2 Zhang Z. and Henzel W.J. (2004)
    4. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PubMed id 12975309)1, 2 Clark H.F.... Gray A.M. (2003)
    5. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    6. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (2012)
    7. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    8. Wegener's granuloma harbors B lymphocytes with specif icities against a proinflammatory transmembrane protein and a tetraspanin. (PubMed id 20951001)1 Thurner L....Voswinkel J. (2011)
    9. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    10. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 56674 HGNC: 1168 AceView: C11orf15 Ensembl:ENSG00000175348 euGenes: HUgn56674
    ECgene: TMEM9B H-InvDB: TMEM9B

    (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 TMEM9B 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 TMEM9B gene:
    Search GeneIP for patents involving TMEM9B

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



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