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

TRIM4 Gene

protein-coding   GIFtS: 45
GCID: GC07M099474

tripartite motif containing 4

(Previous name: tripartite motif-containing 4 )
 Explore 2 diseases affiliated with
TRIM4 via our new
 Human Malady Compendium 
Biological research products
for TRIM4
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Tripartite Motif Containing 41 2
RNF871 2 3
Tripartite Motif-Containing 41 2
RING Finger Protein 872 3
Tripartite Motif Protein 42
Tripartite Motif-Containing Protein 42

External Ids:    HGNC: 162751   Entrez Gene: 891222   Ensembl: ENSG000001468337   UniProtKB: Q9C0373   

Export aliases for TRIM4 gene to outside databases

Previous GC identifers: GC07M098022 GC07M099085 GC07M099099 GC07M099133 GC07M099134 GC07M099325 GC07M094123


(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 TRIM4:
The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three
zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein localizes to
cytoplasmic bodies. Its function has not been identified. Alternatively spliced transcript variants that encode
different isoforms have been described.(provided by RefSeq, Jul 2010)




(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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000007.13  NC_018918.1  NT_007933.15  NT_079595.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRIM4 gene promoter:
         HFH-3   SRF   Max1   Spz1   SRF (504 AA)   GATA-1   FOXI1   CP2   FOXJ2 (long isoform)   FOXJ2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRIM4 promoter sequence
   Search SABiosciences Chromatin IP Primers for TRIM4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM4


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

Entrez Gene cytogenetic band: 7q22-q31.1   Ensembl cytogenetic band:  7q22.1   HGNC cytogenetic band: 7q22-q31.1

TRIM4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM4 gene location

GeneLoc information about chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M099474:  view genomic region     (about GC identifiers)

Start:
99,474,581 bp from pter      End:
99,517,223 bp from pter
Size:
42,643 bases      Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 98,848,146-98,877,343     

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: TRIM4_HUMAN, Q9C037 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 4  
Size: 500 amino acids; 57461 Da
Secondary accessions: A4D298 Q75MK1 Q96F06 Q9C036
Alternative splicing: 3 isoforms:  Q9C037-1   Q9C037-2   Q9C037-3   

Explore the universe of human proteins at neXtProt for TRIM4: NX_Q9C037

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9C037

  • TRIM4 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_148977.2  NP_149082.1  

    ENSEMBL proteins: 
     ENSP00000396229   ENSP00000348216   ENSP00000275736   ENSP00000346186  

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    Novus Biologicals TRIM4 Protein
    Novus Biologicals TRIM4 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse ProSpec Recombinant Proteins
    Uscn Proteins for TRIM4

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IDA--
    GO:0005886plasma membrane IDA--


    TRIM4 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for TRIM4


    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    TRIM4 for domains           About GeneDecksing

    5/9 InterPro domains/families (see all 9):
     IPR017907 Znf_RING_CS
     IPR001841 Znf_RING
     IPR001870 B30.2/SPRY
     IPR003877 SPRY_rcpt
     IPR000315 Znf_B-box

    Graphical View of Domain Structure for InterPro Entry Q9C037

    ProtoNet protein and cluster: Q9C037

    3 Blocks protein families:
    IPB000315 B-box zinc finger signature
    IPB001841 Zn-finger
    IPB003879 Butyrophylin C-terminal DUF signature


    UniProtKB/Swiss-Prot: TRIM4_HUMAN, Q9C037
    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


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    miRNA
    Products:
        
    OriGene 3'-UTR Clone (see all 2): TRIM4
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TRIM4
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    SwitchGear 3'UTR luciferase reporter plasmidTRIM4 3' UTR sequence
    Inhib. RNA
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TRIM4
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    Clone
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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM4

    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008270zinc ion binding IEA--


    TRIM4 for ontologies           About GeneDecksing


    2 GenomeRNAi human phenotypes for TRIM4:
     Decreased Salmonella enterica   Decreased Wnt reporter activit 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TRIM4

    STRING Interaction Network Preview (showing 4 interactants - click image to see more details)

    4 Interacting proteins for TRIM4 (ENSP000003482164) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    MDM2ENSP000004172814STRING: ENSP00000417281
    TRIM41ENSP000003208694STRING: ENSP00000320869
    SUMO1ENSP000003760764STRING: ENSP00000376076
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0070206protein trimerization IDA17156811


    TRIM4 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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 TRIM4
    Search CenterWatch for drugs/clinical trials and news about TRIM4 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TRIM4 gene (2 alternative transcripts): 
    NM_033017.3  NM_033091.2  

    Unigene Cluster for TRIM4:

    Tripartite motif containing 4
    Hs.50749  [show with all ESTs]
    Unigene Representative Sequence: NM_033017
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000447480 ENST00000355947(uc003usd.3) ENST00000349062(uc003use.3 uc011kjc.2)
    ENST00000354241(uc003usf.3) ENST00000496896

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TRIM4
    Search QIAGEN for miScript miRNA Assays for microRNAs that regulate TRIM4
    SwitchGear 3'UTR luciferase reporter plasmidTRIM4 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TRIM4
    OriGene shRNA RFP: TRIM4
    OriGene siRNA: TRIM4
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    Clone
    Products:
         
    OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM4 (see all 2)
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    GenScript: all cDNA clones in your preferred vector: TRIM4 (NM_017583)
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    OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRIM4
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRIM4
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRIM4

    Additional cDNA sequence: 

    AF220023.1 AF220024.1 AK092892.1 AK293565.1 BC011763.2 BC025949.1 

    8 DOTS entries:

    DT.210668  DT.100814118  DT.95367251  DT.100701833  DT.121107628  DT.91656001  DT.91728902  DT.100674425 

    24/144 AceView cDNA sequences (see all 144):

    CR609720 AA722712 AA732360 AW003996 BQ186783 AI004200 AW614857 BU741082 
    AW629620 CA489456 CB154036 BU608172 BM683487 BC025949 BM726767 BQ632397 
    AA913795 BI966807 AA370143 BC011763 N38858 BE503987 BF109577 AA382736 

    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

    TRIM4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    TRIM4 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 7 LifeMap Cells 
    NameCategory
    PureStem™ progenitor E68 (Embryonic Progenitor Cell)
    PureStem™ epithelial progenitor E164 (Embryonic Progenitor Cell)Intermediate Mesoderm, Kidney
    PureStem™ mesenchymal progenitor E15 (Embryonic Progenitor Cell)Adipose, Bone, Cartilage
    PureStem™ progenitor E44 (Embryonic Progenitor Cell)
    PureStem™ progenitor E69 (Embryonic Progenitor Cell)
    PureStem™ progenitor F15 (Embryonic Progenitor Cell)
    HyStem+BMP4-induced E15 cells (HyStem+BMP4 inductio...)Adipose, Bone, Cartilage
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See TRIM4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRIM4

    SOURCE GeneReport for Unigene cluster: Hs.50749
        SABiosciences Expression via Pathway-Focused PCR Array including TRIM4: 
              Ubiquitin Ligases in human mouse rat

    Primer
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM4

    (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 TRIM4 gene from 1/4 species (see all 4)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    zebrafish
    (Danio rerio)
    Actinopterygii trim476
    tripartite motif containing 47
    26(a)
    possible ortholog
    10(26752552-26762609)


    ENSEMBL Gene Tree for TRIM4 (if available)
    TreeFam Gene Tree for TRIM4 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRIM4 gene
    TRIM72  TRIM262  TRIM392  TRIM342  TRIML12  TRIM272  TRIM582  TRIM682  
    TRIM102  TRIM152  TRIM602  TRIM222  TRIM172  TRIM52  TRIM62  TRIM6-TRIM342  
    TRIM212  TRIM382  TRIM39-RPP212  TRIM112  
    8 SIMAP similar genes for TRIM4 using alignment to 2 protein entries:     TRIM4_HUMAN (see all proteins):
    TRIM41    TRIM17    TRIM6    TRIM58    TRIM11    TRIM21
    TRIM39    TRIM75

    TRIM4 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/490 NCBI SNPs in TRIM4 are shown (see all 490    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 7 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1145725561,2
    --99487544(+) CAATCC/TAATCT 2 -- ds50011Minor allele frequency- T:0.01WA 118
    rs1839298961,2
    --99487711(+) GTTTAA/CATCTG 2 -- ds50010--------
    rs1386366631,2
    --99487766(+) TCAACA/GTATGT 2 -- ds50010--------
    rs2011830431,2
    --99487812(+) ATCCT-/GGGAAG 2 -- ds50010--------
    rs1871369921,2
    --99487837(+) GAAACC/TGTTGA 2 -- ds50010--------
    rs1165263451,2
    F,--99487986(+) CCATTA/GTTCGG 2 -- ds50011Minor allele frequency- G:0.03WA 118
    rs1918647051,2
    --99488238(+) AACACA/GTGAAC 2 -- ut310--------
    rs1852173911,2
    --99488270(+) TCTCAC/GGTATA 2 -- ut310--------
    rs1898473701,2
    --99488279(+) TAAGGC/GAGAGC 2 -- ut310--------
    rs2022450141,2
    --99488303(+) CCCAT-/GGACA 
     CAAAAAA
    GGGAA
    2 -- ut310--------

    HapMap Linkage Disequilibrium report for TRIM4 (99474581 - 99517223 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for TRIM4: --

    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRIM4
    DNA2.0 Custom Variant and Variant Library Synthesis for TRIM4

    (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.)
    About This Section

    TRIM4 for disorders           About GeneDecksing

    2 diseases for TRIM4:    About MalaCards
    dermatophytosis    myeloproliferative disorder

    1 disease from the University of Copenhagen DISEASES database for TRIM4:
    Dermatophytosis

    Export disorders for TRIM4 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 TRIM4 gene, integrated from 9 sources (see all 20):
    (articles sorted by number of sources associating them with TRIM4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The tripartite motif family identifies cell compartments. (PubMed id 11331580)1, 2, 3 Reymond A.... Ballabio A. (2001)
    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. Human chromosome 7: DNA sequence and biology. (PubMed id 12690205)1, 2 Scherer S.W.... Tsui L.-C. (2003)
    4. The DNA sequence of human chromosome 7. (PubMed id 12853948)1, 2 Hillier L.W.... Wilson R.K. (2003)
    5. Systematic analysis of dimeric E3-RING interactions re veals increased combinatorial complexity in human ubiquitination networks. (PubMed id 22493164)1 Woodsmith J....Sanderson C.M. (2012)
    6. The proteomic analysis of endogenous FAT10 substrates identifies p62/SQSTM1 as a substrate of FAT10ylation. (PubMed id 22797925)1 Aichem A....Groettrup M. (2012)
    7. Proteome-wide identification of ubiquitylation sites b y conjugation of engineered lysine-less ubiquitin. (PubMed id 22053931)1 Oshikawa K....Nakayama K.I. (2012)
    8. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    9. Determinants of the higher order association of the re striction factor TRIM5alpha and other tripartite motif (TRIM) proteins. (PubMed id 21680743)1 Li X....Sodroski J. (2011)
    10. Eight common genetic variants associated with serum D HEAS levels suggest a key role in ageing mechanisms. (PubMed id 21533175)1 Zhai G....Wallaschofski H. (2011)

    (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: 89122 HGNC: 16275 AceView: TRIM4 Ensembl:ENSG00000146833 euGenes: HUgn89122
    ECgene: TRIM4 H-InvDB: TRIM4

    (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 TRIM4 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 TRIM4 gene:
    Search GeneIP for patents involving TRIM4

    GeneCards and IP:
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