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

TRIM60 Gene

protein-coding   GIFtS: 42
GCID: GC04P165953

Tripartite Motif Containing 60

(Previous names: ring finger protein 129, tripartite motif-containing 60)
(Previous symbols: RNF129, RNF33)
  Search for TRIM60
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
Tripartite Motif Containing 601 2     Tripartite Motif-Containing 601 2
RING Finger Protein 1291 2 3     RING Finger Protein 332 3
RNF1291 2 3     Tripartite Motif-Containing Protein 602
RNF331 2 3     

External Ids:    HGNC: 211621   Entrez Gene: 1666552   Ensembl: ENSG000001769797   UniProtKB: Q495X73   

Export aliases for TRIM60 gene to outside databases

Previous GC identifers: GC04P166311 GC04P166172 GC04P161706


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

Entrez Gene summary for TRIM60 Gene:
The protein encoded by this gene contains a RING finger domain, a motif present in a variety of functionally
distinct proteins and known to be involved in protein-protein and protein-DNA interactions. Pseudogenes of this
gene are located on more than six chromosomes including chromosome 4. Multiple alternatively spliced variants,
encoding the same protein, have been identified. (provided by RefSeq, Jan 2013)

GeneCards Summary for TRIM60 Gene: 
TRIM60 (tripartite motif containing 60) is a protein-coding gene. GO annotations related to this gene include zinc ion binding. An important paralog of this gene is TRIM7.




(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_000004.11  NC_018915.2  NT_016354.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRIM60 gene promoter:
         GR   RFX1   AML1a   NCX/Ncx   Brachyury   RelA   Nkx2-5   Pax-3   ARP-1   GR-alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRIM60 promoter sequence
   Search SABiosciences Chromatin IP Primers for TRIM60

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM60


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

Entrez Gene cytogenetic band: 4q32.3   Ensembl cytogenetic band:  4q32.3   HGNC cytogenetic band: 4q32.3

TRIM60 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM60 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P165953:  view genomic region     (about GC identifiers)

Start:
165,953,105 bp from pter      End:
165,962,896 bp from pter
Size:
9,792 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: TRI60_HUMAN, Q495X7 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 60  
Size: 471 amino acids; 55114 Da
Secondary accessions: Q8NA35

Explore the universe of human proteins at neXtProt for TRIM60: NX_Q495X7

Explore proteomics data for TRIM60 at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q495X7

  • TRIM60 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TRIM60 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001244954.1  NP_689833.1  

    ENSEMBL proteins: 
     ENSP00000421142   ENSP00000421784   ENSP00000426496   ENSP00000343765  

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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:0005622intracellular IEA--

    TRIM60 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: 
    TRIM: Tripartite motif containing / Tripartite motif containing
    RNF: RING-type (C3HC4) zinc fingers

    5/10 InterPro protein domains (see all 10):
     IPR006574 PRY
     IPR017907 Znf_RING_CS
     IPR001841 Znf_RING
     IPR001870 B30.2/SPRY
     IPR003877 SPRY_rcpt

    Graphical View of Domain Structure for InterPro Entry Q495X7

    ProtoNet protein and cluster: Q495X7

    3 Blocks protein domains:
    IPB000315 B-box zinc finger signature
    IPB003879 Butyrophylin C-terminal DUF signature
    IPB006574 SPRY-associated domain


    UniProtKB/Swiss-Prot: TRI60_HUMAN, Q495X7
    Similarity: Belongs to the TRIM/RBCC family
    Similarity: Contains 1 B box-type zinc finger
    Similarity: Contains 1 B30.2/SPRY domain
    Similarity: Contains 1 RING-type zinc finger


    TRIM60 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): 3 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--
    GO:0046872metal ion binding ----
         
    TRIM60 for ontologies           About GeneDecksing


    Phenotypes:
         3 GenomeRNAi human phenotypes for TRIM60:
     Decreased influenza A H1N1 (A/  Decreased influenza A H1N1 (A/  Decreased influenza A/WSN/33 r 

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for TRIM60 
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    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 TRIM60

    (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 TRIM60 (TRI60)

    Search CenterWatch for drugs/clinical trials and news about TRIM60 / TRI60

    (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 TRIM60 gene (2 alternative transcripts): 
    NM_001258025.1  NM_152620.2  

    Unigene Cluster for TRIM60:

    Tripartite motif containing 60
    Hs.368004  [show with all ESTs]
    Unigene Representative Sequence: NM_001258025
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000512596(uc003iqy.1 uc010iqx.1) ENST00000507119 ENST00000508504
    ENST00000341062
    miRNA
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    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for TRIM60
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRIM60
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    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for TRIM60
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      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRIM60

    Additional mRNA sequence: 

    AK093201.1 BC100983.1 BC100984.1 BC100985.1 BC100986.2 

    1 DOTS entry:

    DT.100017163 

    6 AceView cDNA sequences:

    AA700389 NM_152620 BX114353 AA908904 AX747987 AK093201 

    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

    TRIM60 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TCCAATAAAA
    TRIM60 Expression
    About this image


    See TRIM60 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.368004
        SABiosciences Custom PCR Arrays for TRIM60
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for TRIM60
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM60

    (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 human and mouse.

    Orthologs for TRIM60 gene from 1/3 species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Trim601 , 5 tripartite motif-containing 601, 5 67.99(n)1
    54.2(a)1
      8 (32.51 cM)5
    2343291  NM_153097.21  NP_694737.11 
     649984575 


    ENSEMBL Gene Tree for TRIM60 (if available)
    TreeFam Gene Tree for TRIM60 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRIM60 gene
    TRIM72  TRIM42  TRIM262  TRIM392  TRIM342  TRIM272  TRIM582  TRIM682  
    TRIM102  TRIM152  TRIM222  TRIM172  TRIM52  TRIM62  TRIM6-TRIM342  TRIM212  
    TRIM382  TRIM112  TRIM39-RPP212  
    18/44 SIMAP similar genes for TRIM60 using alignment to 2 protein entries:     TRI60_HUMAN (see all proteins) (see all similar genes):
    TRIM61    TRIM73    TRIM39    TRIM75    TRIM5    TRIM39R
    TRIM41    TRIM26    RNF170    TRIM68    BFAR    PCGF3
    TRAF5    TRIM17    TRIM49    CHFR    RNF138    TRAF4

    TRIM60 for paralogs           About GeneDecksing


    5/31 Pseudogenes.org Pseudogenes for TRIM60 (see all 31)
    PGOHUM00000251273 PGOHUM00000256696 PGOHUM00000248457 PGOHUM00000256732 PGOHUM00000244400


    (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

    10/293 SNPs in TRIM60 are shown (see all 293)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1403012391,2
    C--165951334(+) CAATAC/TAATCC 2 -- us2k10--------
    rs1863807371,2
    --165951415(+) GCAATA/CCTCTC 2 -- us2k10--------
    rs802180081,2
    C,F--165951463(+) GCCACC/TCGCCC 2 -- us2k12Minor allele frequency- T:0.05WA NA 238
    rs1503407661,2
    --165951544(+) CATCCC/TATTGG 2 -- us2k10--------
    rs1891795491,2
    --165951594(+) TCATCC/TTCTCT 2 -- us2k10--------
    rs794309281,2
    C,F--165951660(+) TGTTCC/TTACTT 2 -- us2k11Minor allele frequency- T:0.02WA 118
    rs1164740241,2
    C--165951680(+) CCATCA/CAATCT 2 -- us2k10--------
    rs1381459661,2
    --165951695(+) CTTCAC/TCACAA 2 -- us2k10--------
    rs125052131,2
    C,F,A,H--165951703(+) CAAGAG/AGGTAT 2 -- us2k115Minor allele frequency- A:0.18NS EA WA NA 2336
    rs1411429961,2
    --165951928(+) TTTTTA/GGAGAG 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for TRIM60 (165953105 - 165962896 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for TRIM60:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2728685CNV Deletion23290073
    nsv830140CNV Loss17160897
    nsv880382CNV Gain21882294
    dgv1711e1CNV Complex17122850

    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

    TRIM60 for disorders           About MalaCards

    TRIM60 for disorders           About GeneDecksing

    Genetic Association Database (GAD): TRIM60
    Human Genome Epidemiology (HuGE) Navigator: TRIM60 (1 document)

    Export disorders for TRIM60 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 TRIM60 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with TRIM60)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Coeliac disease associated risk variants in TNFAIP3 and REL implicate altered NF-{kappa}B signalling. (PubMed id 19240061)1, 4 Trynka G....Wijmenga C. (2009)
    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. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. 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)
    5. Does this have a familiar RING? (PubMed id 8744354)1 Saurin A.J....Freemont P.S. (1996)

    (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: 166655 HGNC: 21162 AceView: RNF129 Ensembl:ENSG00000176979 euGenes: HUgn166655
    ECgene: TRIM60 H-InvDB: TRIM60

    (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 TRIM60 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 TRIM60 gene:
    Search GeneIP for patents involving TRIM60

    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: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    (GIFtS: 73)
    transforming growth factor, beta 1
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