Aliases for RTP3 Gene

Aliases for RTP3 Gene

  • Receptor Transporter Protein 3 2 3 5
  • Z3CXXC3 2 3 4
  • TMEM7 2 3 4
  • 3CxxC-Type Zinc Finger Protein 3 3 4
  • Receptor-Transporting Protein 3 3 4
  • Zinc Finger, 3CxxC-Type 3 2 3
  • Transmembrane Protein 7 3 4
  • LTM1 2 3
  • Receptor (Chemosensory) Transporter Protein 3 3
  • RTP3 5

External Ids for RTP3 Gene

Previous HGNC Symbols for RTP3 Gene

  • TMEM7

Previous GeneCards Identifiers for RTP3 Gene

  • GC03P046515
  • GC03P046538
  • GC03P046539

Summaries for RTP3 Gene

GeneCards Summary for RTP3 Gene

RTP3 (Receptor Transporter Protein 3) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Olfactory transduction. An important paralog of this gene is RTP4.

UniProtKB/Swiss-Prot Summary for RTP3 Gene

  • Promotes functional cell surface expression of the bitter taste receptors TAS2R16 and TAS2R43.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for RTP3 Gene

Genomics for RTP3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for RTP3 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J046495 Promoter/Enhancer 1.2 EPDnew Ensembl ENCODE 250.7 -1.1 -1075 2.6 IKZF1 CEBPA ATF3 CEBPB REST TRIM22 CTCF EP300 RXRA SMC3 RTP3 piR-31432-485 piR-55650-477 piR-49732-400 piR-46662-480 piR-53431-494 piR-61028-401 piR-54764-456 LTF LRRC2-AS1
GH03J046556 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 12.2 +60.0 60028 3.8 BCLAF1 ZNF654 MYC IKZF1 SSRP1 ZNF592 CEBPA ATF3 NFIC YY1 LRRC2-AS1 LRRC2 RTP3 LTF CCR2 TDGF1 lnc-LTF-2
GH03J046404 Promoter/Enhancer 2.1 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.3 -91.4 -91378 4.8 MYC IKZF1 NCOR1 ZNF592 NFIC NONO SMAD5 BHLHE40 MBD2 MNT CCRL2 CCR5AS CCR1 CCR2 RTP3 CCR5 LIMD1 LRRC2 TDGF1 PRSS45P
GH03J046564 Promoter/Enhancer 1.6 EPDnew FANTOM5 Ensembl ENCODE 11.4 +68.0 68034 2.8 ZNF600 ZIC2 YY1 ZNF341 ELF1 GABPB1 FOXP1 ZBTB48 PKNOX1 ZNF48 LRRC2 lnc-LTF-2 piR-50444-309 LTF RTP3 PRSS50 PRSS46P CCRL2 SCAP LRRC2-AS1
GH03J046549 Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 12.2 +51.6 51625 2 NCOR1 IKZF1 MYC ZNF592 NFIC REST ETS1 HES1 BHLHE40 MBD2 TDGF1 RTP3 LTF LRRC2-AS1 CCR2 HSALNG0025699 lnc-LTF-2 LRRC2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around RTP3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for RTP3

Top Transcription factor binding sites by QIAGEN in the RTP3 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • C/EBPalpha
  • CHOP-10
  • CREB
  • deltaCREB
  • p53
  • Sox5
  • STAT3

Genomic Locations for RTP3 Gene

Latest Assembly
chr3:46,497,976-46,500,950
(GRCh38/hg38)
Size:
2,975 bases
Orientation:
Plus strand

Previous Assembly
chr3:46,539,466-46,542,440
(GRCh37/hg19 by Entrez Gene)
Size:
2,975 bases
Orientation:
Plus strand

chr3:46,538,981-46,542,439
(GRCh37/hg19 by Ensembl)
Size:
3,459 bases
Orientation:
Plus strand

Genomic View for RTP3 Gene

Genes around RTP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
RTP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for RTP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RTP3 Gene

Proteins for RTP3 Gene

  • Protein details for RTP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BQQ7-RTP3_HUMAN
    Recommended name:
    Receptor-transporting protein 3
    Protein Accession:
    Q9BQQ7
    Secondary Accessions:
    • A2RRP6

    Protein attributes for RTP3 Gene

    Size:
    232 amino acids
    Molecular mass:
    27031 Da
    Quaternary structure:
    • Interacts with TAS2R16.

neXtProt entry for RTP3 Gene

Post-translational modifications for RTP3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for RTP3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RTP3 Gene

Domains & Families for RTP3 Gene

Gene Families for RTP3 Gene

Protein Domains for RTP3 Gene

Suggested Antigen Peptide Sequences for RTP3 Gene

GenScript: Design optimal peptide antigens:
  • Transmembrane protein 7 (RTP3_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BQQ7

UniProtKB/Swiss-Prot:

RTP3_HUMAN :
  • Belongs to the TMEM7 family.
Family:
  • Belongs to the TMEM7 family.
genes like me logo Genes that share domains with RTP3: view

Function for RTP3 Gene

Molecular function for RTP3 Gene

UniProtKB/Swiss-Prot Function:
Promotes functional cell surface expression of the bitter taste receptors TAS2R16 and TAS2R43.

Phenotypes From GWAS Catalog for RTP3 Gene

Gene Ontology (GO) - Molecular Function for RTP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16720576
GO:0031849 olfactory receptor binding IBA 21873635
genes like me logo Genes that share ontologies with RTP3: view
genes like me logo Genes that share phenotypes with RTP3: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RTP3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for RTP3 Gene

Localization for RTP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RTP3 Gene

Membrane. Single-pass type III membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for RTP3 gene
Compartment Confidence
cytosol 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
nucleus 1
endoplasmic reticulum 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for RTP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 16720576
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with RTP3: view

Pathways & Interactions for RTP3 Gene

PathCards logo

SuperPathways for RTP3 Gene

genes like me logo Genes that share pathways with RTP3: view

Pathways by source for RTP3 Gene

Gene Ontology (GO) - Biological Process for RTP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001580 detection of chemical stimulus involved in sensory perception of bitter taste IDA 16720576
GO:0006612 protein targeting to membrane IDA 16720576
GO:0051205 protein insertion into membrane IBA 21873635
genes like me logo Genes that share ontologies with RTP3: view

No data available for SIGNOR curated interactions for RTP3 Gene

Drugs & Compounds for RTP3 Gene

No Compound Related Data Available

Transcripts for RTP3 Gene

mRNA/cDNA for RTP3 Gene

1 REFSEQ mRNAs :
3 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for RTP3

Alternative Splicing Database (ASD) splice patterns (SP) for RTP3 Gene

No ASD Table

Relevant External Links for RTP3 Gene

GeneLoc Exon Structure for
RTP3

Expression for RTP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for RTP3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

  • Liver (Hepatobiliary System)

mRNA differential expression in normal tissues according to GTEx for RTP3 Gene

This gene is overexpressed in Liver (x45.6).

Protein differential expression in normal tissues from HIPED for RTP3 Gene

This gene is overexpressed in Liver (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for RTP3 Gene



Protein tissue co-expression partners for RTP3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for RTP3

SOURCE GeneReport for Unigene cluster for RTP3 Gene:

Hs.196584

mRNA Expression by UniProt/SwissProt for RTP3 Gene:

Q9BQQ7-RTP3_HUMAN
Tissue specificity: Expressed predominantly in adult liver (PubMed:11896456, PubMed:17693185). Expressed in testis (PubMed:16720576, PubMed:17693185). Also expressed in kidney, lung and fetal liver (PubMed:17693185). Low levels in heart, thyroid, adrenal gland, pancreas, ovary, prostate, skin, plasma leukocytes, bone marrow and fetal brain (PubMed:17693185). Not detected in brain, spleen, colon, small intestine, skeletal muscle, stomach, placenta, salivary gland and uterus (PubMed:17693185).

Evidence on tissue expression from TISSUES for RTP3 Gene

  • Liver(2.5)
genes like me logo Genes that share expression patterns with RTP3: view

Primer products for research

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for RTP3 Gene

Orthologs for RTP3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for RTP3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia RTP3 29 30
  • 99.53 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia RTP3 29 30
  • 82.82 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia RTP3 29 30
  • 80.57 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Rtp3 30
  • 24 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100496614 29
  • 53.12 (n)
Zebrafish
(Danio rerio)
Actinopterygii si:ch211-276k2.2 29
  • 47.58 (n)
Species where no ortholog for RTP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Fruit Fly (Drosophila melanogaster)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Lizard (Anolis carolinensis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rat (Rattus norvegicus)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for RTP3 Gene

ENSEMBL:
Gene Tree for RTP3 (if available)
TreeFam:
Gene Tree for RTP3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for RTP3: view image
Alliance of Genome Resources:
Additional Orthologs for RTP3

Paralogs for RTP3 Gene

Paralogs for RTP3 Gene

(4) SIMAP similar genes for RTP3 Gene using alignment to 1 proteins:

  • RTP3_HUMAN
genes like me logo Genes that share paralogs with RTP3: view

Variants for RTP3 Gene

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for RTP3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for RTP3 Gene

Variant ID Type Subtype PubMed ID
nsv1013306 CNV gain 25217958
nsv1014624 CNV loss 25217958

Variation tolerance for RTP3 Gene

Residual Variation Intolerance Score: 38.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.23; 5.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for RTP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
RTP3
Leiden Open Variation Database (LOVD)
RTP3

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for RTP3 Gene

Disorders for RTP3 Gene

Additional Disease Information for RTP3

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform

No disorders were found for RTP3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for RTP3 Gene

Publications for RTP3 Gene

  1. Genome-wide association study for femoral neck bone geometry. (PMID: 20175129) Zhao LJ … Deng HW (Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research 2010) 3 22 40
  2. Members of RTP and REEP gene families influence functional bitter taste receptor expression. (PMID: 16720576) Behrens M … Meyerhof W (The Journal of biological chemistry 2006) 2 3 4
  3. RTP family members induce functional expression of mammalian odorant receptors. (PMID: 15550249) Saito H … Matsunami H (Cell 2004) 2 3 4
  4. The transcriptional map of the common eliminated region 1 (C3CER1) in 3p21.3. (PMID: 11896456) Kiss H … Dumanski JP (European journal of human genetics : EJHG 2002) 3 4 22
  5. The interferon-alpha responsive gene TMEM7 suppresses cell proliferation and is downregulated in human hepatocellular carcinoma. (PMID: 17693185) Zhou X … Imreh S (Cancer genetics and cytogenetics 2007) 3 4

Products for RTP3 Gene

Sources for RTP3 Gene