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TMEM170B Gene

protein-coding   GIFtS: 35
GCID: GC06P011537

Transmembrane Protein 170B

  Search for TMEM170B
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Transmembrane Protein 170B1 2

External Ids:    HGNC: 342441   Entrez Gene: 1001134072   Ensembl: ENSG000002052697   UniProtKB: Q5T4T13   

Export aliases for TMEM170B gene to outside databases

Previous GC identifers: GC06P011645 GC06P011538 GC06P011471


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TMEM170B Gene:
TMEM170B (transmembrane protein 170B) is a protein-coding gene. An important paralog of this gene is TMEM170A.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000006.12  NC_018917.2  NT_007592.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the TMEM170B gene promoter:
         c-Fos   AP-1   Sp1   JunB   Fra-1   FosB   Lmo2   JunD   FOXC1   c-Jun   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for TMEM170B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TMEM170B


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

Entrez Gene cytogenetic band: 6p24.2   Ensembl cytogenetic band:  6p24.2   HGNC cytogenetic band: 6p24.1

TMEM170B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TMEM170B gene location

GeneLoc information about chromosome 6         GeneLoc Exon Structure

GeneLoc location for GC06P011537:  view genomic region     (about GC identifiers)

Start:
11,537,938 bp from pter      End:
11,583,757 bp from pter
Size:
45,820 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: T170B_HUMAN, Q5T4T1 (See protein sequence)
Recommended Name: Transmembrane protein 170B  
Size: 132 amino acids; 14360 Da

Explore the universe of human proteins at neXtProt for TMEM170B: NX_Q5T4T1

Explore proteomics data for TMEM170B at MOPED

Post-translational modifications: 

  • Glycosylation2 at Asn12

  • See TMEM170B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001094299.1  
    ENSEMBL proteins: 
     ENSP00000368737   ENSP00000442131  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR019334 Transmembrane_pr_170

    Graphical View of Domain Structure for InterPro Entry Q5T4T1

    ProtoNet protein and cluster: Q5T4T1

    UniProtKB/Swiss-Prot: T170B_HUMAN, Q5T4T1
    Similarity: Belongs to the TMEM170 family


    TMEM170B 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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Animal Models:
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    T170B_HUMAN, Q5T4T1: Membrane; Multi-pass membrane protein (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    extracellular2
    plasma membrane2
    lysosome1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016021integral component of membrane IEA--

    TMEM170B for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TMEM170B
    Interactions:

        Search GeneGlobe Interaction Network for TMEM170B

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for TMEM170B (T170B)



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for TMEM170B gene: 
    NM_001100829.2  

    Unigene Cluster for TMEM170B:

    Transmembrane protein 170B
    Hs.146317  [show with all ESTs]
    Unigene Representative Sequence: NM_001100829
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000379426(uc010jpa.3) ENST00000543875
    miRNA
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    hsa-miR-124* hsa-miR-411* hsa-miR-100* hsa-miR-199a-3p hsa-miR-938 hsa-miR-128 hsa-miR-605 hsa-miR-519a
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    7 DOTS entries:

    DT.86857527  DT.100701094  DT.121368357  DT.97825616  DT.441938  DT.121389429  DT.40302135 

    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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    TMEM170B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CACTTATATA
    TMEM170B Expression
    About this image

    TMEM170B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TMEM170B Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.146317
        Custom PCR Arrays for TMEM170B
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    In Situ
    Assay Products:
     

     
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    (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)
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    This gene was present in the common ancestor of animals.

    Orthologs for TMEM170B gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tmem170b1 , 5 transmembrane protein 170B1, 5 91.16(n)1
    97.73(a)1
      13 (20.55 cM)5
    6219761  NM_001163572.11  NP_001157044.11 
     416062165 
    chicken
    (Gallus gallus)
    Aves TMEM170B1 transmembrane protein 170B 86.11(n)
    93.18(a)
      420857  XM_418945.4  XP_418945.1 
    lizard
    (Anolis carolinensis)
    Reptilia TMEM170B6
    transmembrane protein 170B
    92(a)
    1 ↔ 1
    GL343209.1(3105146-3116245)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia tmem170b1 transmembrane protein 170B 79.04(n)
    88.64(a)
      100487828  XM_002932665.2  XP_002932711.1 
    zebrafish
    (Danio rerio)
    Actinopterygii LOC1005363061 transmembrane protein 170B-like 70.93(n)
    72.8(a)
      100536306  XM_003200515.2  XP_003200563.2 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG123416
    --
    38(a)
    1 → many
    2R(6699662-6700815)


    ENSEMBL Gene Tree for TMEM170B (if available)
    TreeFam Gene Tree for TMEM170B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TMEM170B gene
    TMEM170A2  ENSG000002617172  
    1 SIMAP similar gene for TMEM170B using alignment to 1 protein entry:     T170B_HUMAN:
    TMEM170A

    TMEM170B 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for TMEM170B (see all 923)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 6 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1999388051,2
    C--11536720(+) TAAAC-/AAAAGA 1 -- us2k10--------
    rs1928229631,2
    --11536770(+) AAGAGC/TACCAT 1 -- us2k10--------
    rs1853087291,2
    --11536917(+) GCTGGC/GTACTG 1 -- us2k10--------
    rs778417291,2
    F--11536945(+) TAAAAC/GTTAAA 1 -- us2k11Minor allele frequency- G:0.02WA 118
    rs121908221,2
    H--11537014(+) TTTTAG/AATGCT 1 -- us2k14Minor allele frequency- A:0.00NS EA 412
    rs1379142321,2
    C--11537017(+) TAGAT-/GCT   
      CCTCTG
    GCTAA
    1 -- us2k10--------
    rs571732681,2
    --11537030(+) GGCTAA/GCGCTG 1 -- us2k10--------
    rs1932710101,2
    --11537070(+) AGAGAG/TATCTA 1 -- us2k10--------
    rs1429464311,2
    C--11537091(+) GAGGGA/GAAAAA 1 -- us2k10--------
    rs749761101,2
    C,F--11537106(+) CAGACG/ACAACT 1 -- us2k11Minor allele frequency- A:0.14WA 118

    HapMap Linkage Disequilibrium report for TMEM170B (11537938 - 11583757 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for TMEM170B:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2514109CNV Deletion19546169
    esv3032CNV Deletion18987735
    esv990232CNV Deletion20482838
    esv2731593CNV Deletion23290073
    esv2526594CNV Deletion19546169
    esv2007122CNV Deletion18987734
    esv1451399CNV Deletion17803354
    nsv5200CNV Insertion18451855
    esv9101CNV Loss19470904

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    (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.)
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    TMEM170B for disorders           About GeneDecksing

    Genetic Association Database (GAD): TMEM170B

    Export disorders for TMEM170B 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)
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    PubMed articles for TMEM170B gene integrated from 10 sources:
    (articles sorted by number of sources associating them with TMEM170B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    2. Genome-wide association and linkage analyses of hemostatic factors and hematological phenotypes in the Framingham Heart Study. (PubMed id 17903294)4 Yang Q....O'Donnell C.J. (BMC Med. Genet. 2007)
    3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    4. The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)2 Mungall A.J.... Beck S. (Nature 2003)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    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)
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    Entrez Gene: 100113407 HGNC: 34244 Ensembl:ENSG00000205269 euGenes: HUgn100113407 ECgene: TMEM170B
    H-InvDB: TMEM170B

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for TMEM170B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TMEM170B gene:
    Search GeneIP for patents involving TMEM170B

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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