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

RTP3 Gene

protein-coding   GIFtS: 41
GCID: GC03P046515

Receptor (Chemosensory) Transporter Protein 3

(Previous names: transmembrane protein 7, receptor transporter protein 3)
(Previous symbol: TMEM7)
  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
Receptor (Chemosensory) Transporter Protein 31 2     LTM12
TMEM71 2 3 5     Receptor Transporting Protein 32
Transmembrane Protein 71 2 3     Receptor-Transporting Protein 32
Receptor Transporter Protein 31 2     

External Ids:    HGNC: 155721   Entrez Gene: 835972   Ensembl: ENSG000001638257   OMIM: 6071815   UniProtKB: Q9BQQ73   

Export aliases for RTP3 gene to outside databases


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

GeneCards Summary for RTP3 Gene: 
RTP3 (receptor (chemosensory) transporter protein 3) is a protein-coding gene. Diseases associated with RTP3 include hepatocellular carcinoma. GO annotations related to this gene include protein binding. An important paralog of this gene is RTP4.


(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_000003.11  NC_018914.2  NT_022517.18  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the RTP3 gene promoter:
         Sox5   p53   AP-1   ATF-2   C/EBPalpha   CREB   CHOP-10   deltaCREB   STAT3   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidRTP3 promoter sequence
   Search SABiosciences Chromatin IP Primers for RTP3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RTP3


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

Entrez Gene cytogenetic band: 3p21.3   Ensembl cytogenetic band:  3p21.31   HGNC cytogenetic band: 3p21.3

RTP3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
RTP3 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03P046515:  view genomic region     (about GC identifiers)

Start:
46,538,981 bp from pter      End:
46,542,439 bp from pter
Size:
3,459 bases      Orientation:
plus 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: RTP3_HUMAN, Q9BQQ7 (See protein sequence)
Recommended Name: Receptor-transporting protein 3  
Size: 232 amino acids; 27031 Da
Subcellular location: Membrane; Single-pass type III membrane protein (Potential)
Secondary accessions: A2RRP6

Explore the universe of human proteins at neXtProt for RTP3: NX_Q9BQQ7

Explore proteomics data for RTP3 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9BQQ7

  • RTP3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    RTP3 Protein Expression
    REFSEQ proteins: NP_113628.1  
    ENSEMBL proteins: 
     ENSP00000296142  

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IDA16720576
    GO:0016021integral to membrane IEA--

    RTP3 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
    HGNC Gene Families: 
    RTP: Receptor transporter proteins

    3 InterPro protein domains:
     IPR026691 RTP3
     IPR026096 R-trans_p/CXXC11
     IPR027377 zf-3CxxC

    Graphical View of Domain Structure for InterPro Entry Q9BQQ7

    ProtoNet protein and cluster: Q9BQQ7

    UniProtKB/Swiss-Prot: RTP3_HUMAN, Q9BQQ7
    Similarity: Belongs to the TMEM7 family


    RTP3 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:0005515protein binding IPI16720576
         
    RTP3 for ontologies           About GeneDecksing


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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 RTP3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001580detection of chemical stimulus involved in sensory perception of bitter taste IDA16720576
    GO:0006612protein targeting to membrane IDA16720576

    RTP3 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 RTP3

    Search CenterWatch for drugs/clinical trials and news about RTP3

    (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,
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    About This Section

    REFSEQ mRNAs for RTP3 gene: 
    NM_031440.1  

    Unigene Cluster for RTP3:

    Receptor (chemosensory) transporter protein 3
    Hs.196584  [show with all ESTs]
    Unigene Representative Sequence: AJ312776
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000296142(uc003cps.1)
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RTP3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RTP3

    Additional mRNA sequence: 

    AJ312776.1 AY562237.1 BC131756.1 

    2 DOTS entries:

    DT.99959942  DT.102821009 

    5 AceView cDNA sequences:

    AJ312776 NM_031440 AI656630 BG207983 AI656777 

    GeneLoc Exon Structure


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

    RTP3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AAGCTAAGTC
    RTP3 Expression
    About this image


    See RTP3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for RTP3

    SOURCE GeneReport for Unigene cluster: Hs.196584

    UniProtKB/Swiss-Prot: RTP3_HUMAN, Q9BQQ7
    Tissue specificity: Expressed predominantly in the liver

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RTP3

    (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 chordates.

    Orthologs for RTP3 gene from 2/6 species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Rtp31 , 5 receptor transporter protein 31, 5 73.64(n)1
    65.12(a)1
      9 (60.79 cM)5
    2356361  NM_153100.21  NP_694740.21 
     1109858715 
    zebrafish
    (Danio rerio)
    Actinopterygii si:ch211-276k2.11 si:ch211-276k2.1 50.54(n)
    36.77(a)
      565147  NM_001128720.1  NP_001122192.1 


    ENSEMBL Gene Tree for RTP3 (if available)
    TreeFam Gene Tree for RTP3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for RTP3 gene
    RTP42  RTP12  RTP22  CXXC112  
    4 SIMAP similar genes for RTP3 using alignment to 1 protein entry:     RTP3_HUMAN:
    RTP4    RTP2    RTP1    CXXC11

    RTP3 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

    10/125 SNPs in RTP3 are shown (see all 125)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 3 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1480298171,2
    --46537542(+) CCTCAA/CAGCTC 1 -- us2k10--------
    rs8676191,2
    C,F,A,H--46537750(+) GAAACC/GCTTTT 1 -- us2k1 tfbs3 trp3100Minor allele frequency- G:0.30NS EA NA PA EU CA WA CSA 6254
    rs8676201,2
    C,F,A,H--46537849(+) AATGCT/CAAAGT 1 -- us2k112Minor allele frequency- C:0.26NA WA CSA EA 380
    rs1844061481,2
    --46537934(+) ATAAAA/GCTCCC 1 -- us2k10--------
    rs1408556841,2
    --46537999(+) GTCTTA/GTTTAT 1 -- us2k10--------
    rs8837391,2
    C,F,A,H--46538018(-) gcaatC/Aagata 1 -- us2k1105Minor allele frequency- A:0.41NS EA NA PA EU CA WA CSA 6712
    rs1504270911,2
    --46538022(+) TGATTG/TCAACA 1 -- us2k10--------
    rs8837381,2
    C,F,A--46538179(-) CAAGGG/AGACCC 1 -- us2k17Minor allele frequency- A:0.23NA WA CSA EA 366
    rs1890251961,2
    --46538329(+) AAAGTA/CTACAG 1 -- us2k10--------
    rs1809811991,2
    --46538375(+) ATTTTC/GTATAA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for RTP3 (46538981 - 46542439 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for RTP3: --
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing RTP3
    DNA2.0 Custom Variant and Variant Library Synthesis for RTP3

    (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
    OMIM gene information: 607181    OMIM disorders: --

    2 diseases for RTP3:    About MalaCards
    hepatocellular carcinoma    


    RTP3 for disorders           About GeneDecksing

    Genetic Association Database (GAD): RTP3
    Human Genome Epidemiology (HuGE) Navigator: RTP3 (1 document)

    Export disorders for RTP3 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 RTP3 gene, integrated from 9 sources (see all 20):
    (articles sorted by number of sources associating them with RTP3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. RTP family members induce functional expression of mammalian odorant receptors. (PubMed id 15550249)1, 2, 3 Saito H....Matsunami H. (2004)
    2. Genome-wide association study for femoral neck bone g eometry. (PubMed id 20175129)1, 4, 9 Zhao L.J....Deng H.W. (2010)
    3. The transcriptional map of the common eliminated region 1 (C3CER1) in 3p21.3. (PubMed id 11896456)1, 2, 9 Kiss H....Dumanski J.P. (2002)
    4. Members of RTP and REEP gene families influence functional bitter taste receptor expression. (PubMed id 16720576)1, 3 Behrens M....Meyerhof W. (2006)
    5. Inherited ACTH insensitivity illuminates the mechanisms of ACTH action. (PubMed id 16271481)1, 3 Clark A.J....Huebner A. (2005)
    6. The interferon-alpha responsive gene TMEM7 suppresses cell proliferation and is downregulated in human hepatocellular carcinoma. (PubMed id 17693185)1 Zhou X....Imreh S. (2007)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    9. Selective translocation of intracellular Smoothened to the primary cilium in response to Hedgehog pathway modulation. (PubMed id 19196978)9 Wang Y....McMahon A.P. (2009)
    10. Regulation of endoplasmic reticulum-associated degradation by RNF5-dependent ubiquitination of JNK-associated membrane protein (JAMP). (PubMed id 19269966)9 Tcherpakov M....Ronai Z.A. (2009)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     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)
    About This Section
    Entrez Gene: 83597 HGNC: 15572 AceView: TMEM7 Ensembl:ENSG00000163825 euGenes: HUgn83597
    ECgene: RTP3 H-InvDB: RTP3

    (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 RTP3 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 RTP3 gene:
    Search GeneIP for patents involving RTP3

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



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

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
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    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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