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

TRIM46 Gene

protein-coding   GIFtS: 47
GCID: GC01P155146

tripartite motif containing 46

(Previous name: tripartite motif-containing 46 )
  Search for TRIM46
in our new
 Human Malady Compendium 
Biological research products
for TRIM46
    

(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 461 2     FLJ232291
TRIFIC1 2 3     Tripartite Motif-Containing 461
Gene Y Protein2 3     Tripartite Motif-Containing Protein 462
Tripartite, Fibronectin Type-III And C-Terminal SPRY Motif Protein2 3     GeneY3
GENEY2 5     

External Ids:    HGNC: 190191   Entrez Gene: 801282   Ensembl: ENSG000001634627   OMIM: 6009865   UniProtKB: Q7Z4K83   

Export aliases for TRIM46 gene to outside databases

Previous GC identifers: GC01P150886 GC01P151921 GC01P152363 GC01P151959 GC01P153412 GC01P126508


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

  --

(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_000001.10  NC_018912.1  NT_004487.19  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRIM46 gene promoter:
         AP-1   HTF   ATF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRIM46 promoter sequence
   Search SABiosciences Chromatin IP Primers for TRIM46

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM46


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

Entrez Gene cytogenetic band: 1q22   Ensembl cytogenetic band:  1q22   HGNC cytogenetic band: 1q22

TRIM46 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM46 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P155146:  view genomic region     (about GC identifiers)

Start:
155,145,873 bp from pter      End:
155,157,447 bp from pter
Size:
11,575 bases      Orientation:
plus strand

(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: TRI46_HUMAN, Q7Z4K8 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 46  
Size: 759 amino acids; 83424 Da
Secondary accessions: A0AVI6 B1AVQ4 Q5VT60 Q5VT62 Q6NT17 Q6NT41 Q6ZRL7 Q9H5P2
Alternative splicing: 5 isoforms:  Q7Z4K8-1   Q7Z4K8-2   Q7Z4K8-3   Q7Z4K8-4   Q7Z4K8-5   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for TRIM46: NX_Q7Z4K8

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q7Z4K8

  • TRIM46 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (4 alternative transcripts): 
    NP_001243528.1  NP_001243529.1  NP_001243530.1  NP_079334.3  

    ENSEMBL proteins: 
     ENSP00000357369   ENSP00000357367   ENSP00000357366   ENSP00000334657   ENSP00000442719  
     ENSP00000376245   ENSP00000440254  

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    Novus Biologicals TRIM46 Protein
    Novus Biologicals TRIM46 Lysate
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    Browse ProSpec Recombinant Proteins
    Uscn Proteins for TRIM46

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular IEA--


    TRIM46 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for TRIM46


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

    TRIM46 for domains           About GeneDecksing

    5/10 InterPro domains/families (see all 10):
     IPR017907 Znf_RING_CS
     IPR001841 Znf_RING
     IPR001870 B30.2/SPRY
     IPR017903 COS_domain
     IPR003961 Fibronectin_type3

    Graphical View of Domain Structure for InterPro Entry Q7Z4K8

    ProtoNet protein and cluster: Q7Z4K8

    2 Blocks protein families:
    IPB000315 B-box zinc finger signature
    IPB001841 Zn-finger


    UniProtKB/Swiss-Prot: TRI46_HUMAN, Q7Z4K8
    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 COS domain
    Similarity: Contains 1 fibronectin type-III domain
    Similarity: Contains 2 RING-type zinc fingers


    (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
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    OriGene 3'-UTR Clone: TRIM46
    Browse MicroRNA Expression Plasmids
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat TRIM46
    8/13 QIAGEN miScript miRNA Assays for microRNAs that regulate TRIM46 (see all 13):
    hsa-miR-455-5p hsa-miR-550a hsa-miR-27a hsa-miR-128 hsa-miR-1271 hsa-miR-3681* hsa-miR-3175 hsa-miR-3142
    SwitchGear 3'UTR luciferase reporter plasmidTRIM46 3' UTR sequence
    Inhib. RNA
    Products:
        
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    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TRIM46 (see all 6)
    OriGene shRNA RFP: TRIM46
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    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRIM46

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM46

    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--


    TRIM46 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for TRIM46:
     Synthetic lethal with Ras 


    (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 TRIM46

    STRING Interaction Network Preview (showing 5 interactants - click image to see 10)

    5/13 Interacting proteins for TRIM46 (Q7Z4K82, 3 ENSP000003346574) via UniProtKB, MINT, STRING, and/or I2D (see all 13)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TK1P041832, 3MINT-8274247 I2D: score=2 
    TSG101Q998163, ENSP000002519684I2D: score=2 STRING: ENSP00000251968
    UBE2UQ5VVX93, ENSP000003601164I2D: score=2 STRING: ENSP00000360116
    UBE2ZQ9H8323, ENSP000003542014I2D: score=2 STRING: ENSP00000354201
    AK5Q9Y6K83I2D: score=4 
    About this table

    (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 TRIM46
    Search CenterWatch for drugs/clinical trials and news about TRIM46 / TRI46 

    (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 TRIM46 gene (4 alternative transcripts): 
    NM_001256599.1  NM_001256600.1  NM_001256601.1  NM_025058.4  

    Unigene Cluster for TRIM46:

    Tripartite motif containing 46
    Hs.287735  [show with all ESTs]
    Unigene Representative Sequence: NR_046329
    10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000368385(uc010pez.1 uc001fhq.3 uc001fhr.3) ENST00000368383(uc009wpg.1)
    ENST00000474430(uc009wpe.1) ENST00000368382(uc001fhu.1) ENST00000334634
    ENST00000464760(uc009wpf.2) ENST00000468878(uc001fhw.1) ENST00000543729
    ENST00000392451(uc001fhs.1 uc001fht.1 uc010pfa.1) ENST00000545012


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    8/13 QIAGEN miScript miRNA Assays for microRNAs that regulate TRIM46 (see all 13):
    hsa-miR-455-5p hsa-miR-550a hsa-miR-27a hsa-miR-128 hsa-miR-1271 hsa-miR-3681* hsa-miR-3175 hsa-miR-3142
    SwitchGear 3'UTR luciferase reporter plasmidTRIM46 3' UTR sequence
    Inhib. RNA
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    OriGene shRNA RFP: TRIM46
    Browse OriGene siRNA
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRIM46
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    Additional cDNA sequence: 

    AK026882.1 AK090504.1 AK096158.1 AK128139.1 AK225075.1 AK296300.1 AK297318.1 AK304542.1 
    AK308075.1 AK309699.1 AK310429.1 AY251386.1 BC069416.1 BC069568.1 BC126372.1 BC143828.1 
    NR_046327.1 NR_046328.1 NR_046329.1 

    14 DOTS entries:

    DT.102822540  DT.121335552  DT.110993  DT.121335530  DT.101979694  DT.91682793  DT.121335534  DT.100754586 
    DT.121335477  DT.121335536  DT.91702489  DT.100845149  DT.100020974  DT.121335550 

    24/27 AceView cDNA sequences (see all 27):

    CR601445 BX327092 AK096158 NM_025058 BC069416 CD108922 AK128139 BX376350 
    CD632413 BX283909 AK026882 CD632421 AY251386 CD632415 CD632411 CD632407 
    BC069568 BG744577 CD632423 BQ928969 BG743891 CD632409 BX376349 CD632424 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for TRIM46 (see all 6)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12
    SP1:                                                                                                      
    SP2:              -     -                                                                                 
    SP3:                                                                                                      
    SP4:              -     -     -                                                                           
    SP5:                    -     -                                                                           


    ECgene alternative splicing isoforms for TRIM46

    (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

    TRIM46 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GTTTATAAAC

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

    About this image
    See TRIM46 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRIM46

    SOURCE GeneReport for Unigene cluster: Hs.287735
        SABiosciences Custom PCR Arrays for TRIM46
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM46

    (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 TRIM46 gene from 1/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    zebrafish
    (Danio rerio)
    Actinopterygii trim46b1 tripartite motif containing 46b 63.77(n)
    62.34(a)
      100034631  NM_001083100.1  NP_001076569.1 


    ENSEMBL Gene Tree for TRIM46 (if available)
    TreeFam Gene Tree for TRIM46 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRIM46 gene
    TRIM132  FSD1L2  TRIM632  TRIM592  TRIM672  TRIM92  TRIM362  MID12  
    TRIM552  MID22  TRIM542  FSD12  
    4 SIMAP similar genes for TRIM46 using alignment to 4 protein entries:     TRI46_HUMAN (see all proteins):
    TRIM36    TRIM39    BRCA1    MID1

    TRIM46 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

    10/191 NCBI SNPs in TRIM46 are shown (see all 191    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs720229201,2
    C,--155144285(+) CATCC-/CTGCACT 6 -- us2k1 int10--------
    rs49710931,2
    C,F,A,--155144300(+) GCCTAG/AGCGAC 6 -- us2k1 int18Minor allele frequency- A:0.45NA CSA WA EA 368
    rs1468321491,2
    --155144346(+) AAAAA-/GAGAAA 6 -- us2k1 int10--------
    rs1381257501,2
    --155144384(+) TGTTTC/TACCAC 6 -- int1 us2k10--------
    rs1894443971,2
    --155144539(+) ATTGAA/GCAAGA 6 -- int1 us2k10--------
    rs1921562131,2
    --155144657(+) AATAAC/GTAGAA 6 -- int1 us2k10--------
    rs589391301,2
    C,--155144757(+) GCGAAT/CAGATG 6 -- int1 us2k14Minor allele frequency- C:0.10WA CSA NA 242
    rs112643401,2
    C,H--155144870(+) CAACTC/TCAGGA 6 -- us2k1 int16Minor allele frequency- T:0.00NS EA NA 424
    rs2009559161,2
    --155145018(+) AAATAC/TTCAAG 6 -- int1 us2k10--------
    rs412649111,2
    C,F,--155145392(+) GGGACG/AGAGAG 8 -- int1 us2k12Minor allele frequency- A:0.02NA EU 449

    HapMap Linkage Disequilibrium report for TRIM46 (155145873 - 155157447 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 3 variations for TRIM46
         3 CNVs: 3315 30441 4257

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRIM46
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    (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

    TRIM46 for disorders           About MalaCards

    TRIM46 for disorders           About GeneDecksing

    OMIM gene information: 600986    OMIM disorders: --


    Export disorders for TRIM46 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 TRIM46 gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with TRIM46)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Subclassification of the RBCC/TRIM superfamily reveals a novel motif necessary for microtubule binding. (PubMed id 16434393)1, 2 Short K.M. and Cox T.C. (2006)
    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. 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)
    5. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)
    6. Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network. (PubMed id 19549727)1 Markson G....Sanderson C.M. (2009)
    7. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
    8. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)2 Gregory S.G.... Bentley D.R. (2006)
    9. A human protein-protein interaction network: a resource for annotating the proteome. (PubMed id 16169070)1 Stelzl U.... Wanker E.E. (2005)
    10. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (2004)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 80128 HGNC: 19019 AceView: TRIM46 Ensembl:ENSG00000163462 euGenes: HUgn80128
    ECgene: TRIM46 H-InvDB: TRIM46

    (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 TRIM46 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 TRIM46 gene:
    Search GeneIP for patents involving TRIM46

    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, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, 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
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    GeneCards Homepage - Last full update: 18 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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