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

TARM1 Gene

protein-coding   GIFtS: 35
GCID: GC19M054573

T Cell-Interacting, Activating Receptor On Myeloid Cells...

  See related diseases
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
T Cell-Interacting, Activating Receptor On Myeloid Cells 11 2
OLT-22 3
OSCAR-Like Transcript-2 Protein2 3
T-Cell-Interacting, Activating Receptor On Myeloid Cells Protein 12

External Ids:    HGNC: 372501   Entrez Gene: 4418642   Ensembl: ENSG000002483857   UniProtKB: B6A8C73   

Export aliases for TARM1 gene to outside databases

Previous GC identifers: GC19M059265 GC19M050888


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

GeneCards Summary for TARM1 Gene: 
TARM1 (T cell-interacting, activating receptor on myeloid cells 1) is a protein-coding gene. Diseases associated with TARM1 include exanthema subitum, and hepatopulmonary syndrome. An important paralog of this gene is LILRB4.


(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_000019.9  NT_011109.16  NC_018930.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for TARM1
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for TARM1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TARM1


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

Entrez Gene cytogenetic band: 19q13.42   Ensembl cytogenetic band:  19q13.42   HGNC cytogenetic band: 19q13.42

TARM1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TARM1 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M054573:  view genomic region     (about GC identifiers)

Start:
54,573,149 bp from pter      End:
54,584,634 bp from pter
Size:
11,486 bases      Orientation:
minus strand

6/8 alternative locations (see all 8):
Chr19-,NW_003571057 44,314-55,747      Chr19-,NW_003571060 44,314-55,747      Chr19-,NW_003571059 44,314-55,747     
Chr19-,NW_003571054 44,314-55,747      Chr19-,NW_003571058 44,314-55,747      Chr19-,NW_003571055 44,314-55,747     

(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: TARM1_HUMAN, B6A8C7 (See protein sequence)
Recommended Name: T-cell-interacting, activating receptor on myeloid cells protein 1 precursor  
Size: 271 amino acids; 29474 Da
Subcellular location: Membrane; Single-pass type I membrane protein (Potential)
Secondary accessions: B4DWY4
Alternative splicing: 2 isoforms:  B6A8C7-1   B6A8C7-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TARM1: NX_B6A8C7

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_B6A8C7

  • TARM1 Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --
    REFSEQ proteins: NP_001129158.2  
    ENSEMBL proteins: 
     ENSP00000441055   ENSP00000439454  

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    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--

    TARM1 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: 
    IGD: Immunoglobulin superfamily / Immunoglobulin-like domain containing

    2 InterPro protein domains:
     IPR003599 Ig_sub
     IPR013783 Ig-like_fold

    Graphical View of Domain Structure for InterPro Entry B6A8C7

    ProtoNet protein and cluster: B6A8C7

    UniProtKB/Swiss-Prot: TARM1_HUMAN, B6A8C7
    Similarity: Contains 2 Ig-like C2-type (immunoglobulin-like) domains


    TARM1 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

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for TARM1 
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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 TARM1

    (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 TARM1

    Search CenterWatch for drugs/clinical trials and news about TARM1

    (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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    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 TARM1 gene: 
    NM_001135686.2  

    Unigene Cluster for TARM1:

    T cell-interacting, activating receptor on myeloid cells 1
    Hs.694674  [show with all ESTs]
    Unigene Representative Sequence: AK301730
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000446034 ENST00000432826(uc010yei.1)
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TARM1

    Additional mRNA sequence: 

    AK301730.1 DQ479398.1 

    1 AceView cDNA sequence:

    BG461652 

    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

    TARM1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGAGCTTTCC
    TARM1 Expression
    About this image


    SOURCE GeneReport for Unigene cluster: Hs.694674
        SABiosciences Custom PCR Arrays for TARM1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TARM1

    (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 TARM1 gene from 3/8 species (see all 8)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Tarm11 , 5 T cell-interacting, activating receptor on myeloid more1, 5 65.91(n)1
    52.65(a)1
      7 (2.04 cM)5
    2451261  NM_177363.31  NP_796337.11 
     34890795 
    chicken
    (Gallus gallus)
    Aves --
    --
    (see all 62)
    --
    27(a)
    27(a)
    (see all 62)
    many ↔ many
    many ↔ many
    (see all 62)
    JH376129.1(21-1032)
    JH376121.1(3529-4219)
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    (see all 3)
    Uncharacterized protein
    (see all 3)
    8(a)
    11(a)
    (see all 3)
    many ↔ many
    many ↔ many
    (see all 3)
    GL343329.1(823590-844642)
    GL343329.1(1229430-1238742)


    ENSEMBL Gene Tree for TARM1 (if available)
    TreeFam Gene Tree for TARM1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TARM1 gene
    LILRB42  KIR2DL42  LILRB12  KIR2DS42  LILRA62  LILRA52  IGSF12  KIR3DL12  
    OSCAR2  NCR12  LILRA42  ENSG000002177922  KIR3DX12  LILRA32  LILRB52  KIR3DL32  
    LILRA12  KIR3DS12  KIR2DL12  LILRB22  A1BG2  KIR3DL22  LILRA22  KIR2DL32  
    FCAR2  GP62  LILRB32  
    3 SIMAP similar genes for TARM1 using alignment to 1 protein entry:     TARM1_HUMAN:
    VSTM1    FCAR    LAIR2

    TARM1 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TARM1
    PGOHUM00000250586


    (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

    10/361 SNPs in TARM1 are shown (see all 361)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1916124851,2
    --54572782(+) TTTATA/TAAGAA 1 -- ds50010--------
    rs1505198331,2
    --54572856(+) GTGGTC/TATTTC 1 -- ds50010--------
    rs1146482721,2
    F--54572891(+) GGACTG/ATTCAT 1 -- ds50011Minor allele frequency- A:0.02WA 118
    rs1164858861,2
    F--54572912(+) GGAAAG/CGGGAG 1 -- ds50011Minor allele frequency- C:0.04WA 118
    rs590337721,2
    C,F--54572947(+) CCTCCC/GTCGTT 1 -- ds50012Minor allele frequency- G:0.11WA 120
    rs621472721,2
    C,F--54572998(+) GTGGCG/AGTGGG 1 -- ds50015Minor allele frequency- A:0.17NA EA 246
    rs1816550831,2
    --54573059(+) AGGACA/GACCAG 1 -- ds50010--------
    rs1398029531,2
    C--54573300(+) CATTCC/TGGCTG 2 Q R mis10--------
    rs777688041,2,4
    C,F--54573301(+) ATTCCG/AGCTGT 2 /R /W mis11Minor allele frequency- A:0.07NA 120
    rs1148265801,2
    C,F--54573444(+) CTGACC/ACTCAG 1 -- int11Minor allele frequency- A:0.03WA 118

    HapMap Linkage Disequilibrium report for TARM1 (54573149 - 54584634 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 9 variations for TARM1:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2718852CNV Deletion23290073
    esv2718812CNV Deletion23290073
    nsv2542CNV Loss18451855
    nsv470157CNV Loss18288195
    nsv510773CNV Loss20534489
    nsv833877CNV Loss17160897
    nsv182CNV Loss15895083
    nsv458782CNV Gain19166990
    esv29726CNV Gain19812545

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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
    4 diseases for TARM1:    About MalaCards
    exanthema subitum    hepatopulmonary syndrome    retinitis pigmentosa    retinitis

    2 diseases from the University of Copenhagen DISEASES database for TARM1:
    Exanthema subitum     Hepatopulmonary syndrome

    TARM1 for disorders           About GeneDecksing


    Export disorders for TARM1 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 TARM1 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with TARM1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Breakpoint characterization of a novel approximately 59 kb genomic deletion on 19q13.42 in autosomal-dominant retinitis pigmentosa with incomplete penetrance. (PubMed id 19050727)1 KAPhn L....Golovleva I. (2009)
    2. The DNA sequence and biology of human chromosome 19. (PubMed id 15057824)2 Grimwood J.... Lucas S.M. (2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
    4. Hepatitis C virus core protein interacts with 14-3-3 protein and activates the kinase Raf-1. (PubMed id )2 Aoki H.... Hino O. (2000)

    (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: 441864 HGNC: 37250 AceView: LOC441864 Ensembl:ENSG00000248385 euGenes: HUgn441864
    ECgene: TARM1 H-InvDB: TARM1

    (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 TARM1 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 TARM1 gene:
    Search GeneIP for patents involving TARM1

    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
    GIFtS Group
    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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