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TRIM13 Gene

protein-coding   GIFtS: 52
GCID: GC13P050570

Tripartite Motif Containing 13

(Previous names: ret finger protein 2, tripartite motif-containing 13)
(Previous symbol: RFP2)
  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)
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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Tripartite Motif Containing 131 2     B-Cell Chronic Lymphocytic Leukemia Tumor Suppressor Leu52 3
RFP21 2 3 5     RING Finger Protein 772 3
Ret Finger Protein 21 2 3     CAR2
LEU52 3 5     DLEU52
Tripartite Motif-Containing 131 2     CLL-Associated RING Finger2
Leukemia-Associated Protein 52 3     E3 Ubiquitin-Protein Ligase TRIM132
Putative Tumor Suppressor RFP22 3     Tripartite Motif Protein 132
Tripartite Motif-Containing Protein 132 3     EC 6.3.2.-3
RNF772 3     

External Ids:    HGNC: 99761   Entrez Gene: 102062   Ensembl: ENSG000002049777   OMIM: 6056615   UniProtKB: O608583   
ORGUL members:         

Export aliases for TRIM13 gene to outside databases

Previous GC identifers: GC13P049472 GC13P031366


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for TRIM13 Gene:
This gene encodes 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. This gene is located on chromosome
13 within the minimal deletion region for B-cell chronic lymphocytic leukemia. Multiple alternatively spliced
transcript variants have been found for this gene. (provided by RefSeq, Jul 2008)

GeneCards Summary for TRIM13 Gene:
TRIM13 (tripartite motif containing 13) is a protein-coding gene. Diseases associated with TRIM13 include chronic lymphocytic leukemia, and b-cell chronic lymphocytic leukemia. GO annotations related to this gene include ubiquitin-protein ligase activity and signal transducer activity. An important paralog of this gene is FSD1L.

UniProtKB/Swiss-Prot: TRI13_HUMAN, O60858
Function: E3 ubiquitin ligase involved in the retrotranslocation and turnover of membrane and secretory proteins
from the ER through a set of processes named ER-associated degradation (ERAD). This process acts on misfolded
proteins as well as in the regulated degradation of correctly folded proteins. Enhances ionizing
radiation-induced p53/TP53 stability and apoptosis via ubiquitinating MDM2 and AKT1 and decreasing AKT1 kinase
activity through MDM2 and AKT1 proteasomal degradation. Regulates ER stress-induced autophagy, and may act as a
tumor suppressor




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000013.11  NC_018924.2  NT_024524.15  
Regulatory elements:
   Regulatory transcription factor binding sites in the TRIM13 gene promoter:
         HSF1 (long)   MEF-2A   PPAR-gamma1   POU2F1   POU2F1a   HOXA5   Cart-1   HSF1short   PPAR-gamma2   aMEF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): TRIM13 promoter sequence
   Search Chromatin IP Primers for TRIM13

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRIM13


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

Entrez Gene cytogenetic band: 13q14   Ensembl cytogenetic band:  13q14.2   HGNC cytogenetic band: 13q14

TRIM13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM13 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13P050570:  view genomic region     (about GC identifiers)

Start:
50,570,024 bp from pter      End:
50,594,617 bp from pter
Size:
24,594 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: TRI13_HUMAN, O60858 (See protein sequence)
Recommended Name: E3 ubiquitin-protein ligase TRIM13  
Size: 407 amino acids; 46988 Da
Subunit: Interacts (via C-terminal domain) with VCP. Interacts with AKT1; the interaction ubiquitinates AKT1 and
leads to its proteasomal degradation. Interacts with MDM2; the interaction ubiquitinates AKT1 and leads to its
proteasomal degradation. Interacts with p62/SQSTM1
Miscellaneous: Located on chromosome 13 within the minimal deletion region for B-cell chronic lymphocytic leukemia
Secondary accessions: B2RB49 Q5UBW0 Q5W0U8 Q5W0U9 Q9BQ47 Q9C021
Alternative splicing: 3 isoforms:  O60858-1   O60858-2   O60858-3   

Explore the universe of human proteins at neXtProt for TRIM13: NX_O60858

Explore proteomics data for TRIM13 at MOPED

Post-translational modifications: 

  • Auto-ubiquitinated; requires the RING-type zinc finger. Auto-polyubiquitination leads to proteasomal degradation1
  • Ubiquitination2 at Lys125
  • Modification sites at PhosphoSitePlus

  • See TRIM13 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001007279.1  NP_005789.2  NP_434698.1  NP_998755.1  

    ENSEMBL proteins: 
     ENSP00000404586   ENSP00000367425   ENSP00000412943   ENSP00000367424   ENSP00000348299  
     ENSP00000399206   ENSP00000298772  

    TRIM13 Human Recombinant Protein Products:

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    Novus Biologicals TRIM13 Proteins
    Novus Biologicals TRIM13 Lysates
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for TRIM13

    TRIM13 Antibody Products:

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    Novus Biologicals TRIM13 Antibodies
    Search for Antibodies for TRIM13 at Abcam
    Cloud-Clone Corp. Antibodies for TRIM13
    ThermoFisher Antibodies for TRIM13
    LSBio Antibodies in human, mouse, rat for TRIM13

    TRIM13 Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for TRIM13
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for TRIM13
    Cloud-Clone Corp. CLIAs for TRIM13


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    TRIM: Tripartite motif containing / Tripartite motif containing
    RNF: RING-type (C3HC4) zinc fingers

    4 InterPro protein domains:
     IPR017907 Znf_RING_CS
     IPR001841 Znf_RING
     IPR000315 Znf_B-box
     IPR013083 Znf_RING/FYVE/PHD

    Graphical View of Domain Structure for InterPro Entry O60858

    ProtoNet protein and cluster: O60858

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


    UniProtKB/Swiss-Prot: TRI13_HUMAN, O60858
    Domain: The coiled-coil domain is required for the induction of autophagy during endoplasmic reticulum (ER) stress
    Domain: The RING-type zinc finger is required for auto-polyubiquitination
    Domain: The C-terminal domain transmembrane domain is indispensable for the localization to the ER
    Similarity: Belongs to the TRIM/RBCC family
    Similarity: Contains 1 B box-type zinc finger
    Similarity: Contains 1 RING-type zinc finger


    TRIM13 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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TRI13_HUMAN, O60858
    Function: E3 ubiquitin ligase involved in the retrotranslocation and turnover of membrane and secretory proteins
    from the ER through a set of processes named ER-associated degradation (ERAD). This process acts on misfolded
    proteins as well as in the regulated degradation of correctly folded proteins. Enhances ionizing
    radiation-induced p53/TP53 stability and apoptosis via ubiquitinating MDM2 and AKT1 and decreasing AKT1 kinase
    activity through MDM2 and AKT1 proteasomal degradation. Regulates ER stress-induced autophagy, and may act as a
    tumor suppressor

         Enzyme Number (IUBMB): EC 6.3.2.-1

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004842ubiquitin-protein ligase activity IDA17314412
    GO:0004871signal transducer activity IMP12761501
    GO:0005515protein binding IPI17314412
    GO:0008270zinc ion binding IEA--
    GO:0046872metal ion binding ----
         
    TRIM13 for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for TRIM13:
     Decreased viability  Increased cell death HMECs cel 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for TRIM13
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for TRIM13

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TRIM13
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for TRIM13

    miRNA
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    miRTarBase miRNAs that target TRIM13:
    hsa-mir-26b-5p (MIRT028784)

    Block miRNA regulation of human, mouse, rat TRIM13 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TRIM13 (see all 24):
    hsa-miR-495 hsa-miR-16-2* hsa-miR-513a-5p hsa-miR-3660 hsa-miR-888* hsa-miR-515-5p hsa-miR-499-5p hsa-miR-208b
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    OriGene RNAi products in human, mouse, rat for TRIM13
    Predesigned siRNA for gene silencing in human, mouse, rat TRIM13

    Gene Editing
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    DNA2.0 Custom Protein Engineering Service for TRIM13

    Clone
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    OriGene clones in human, mouse for TRIM13 (see all 23)
    OriGene ORF clones in mouse, rat for TRIM13
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 4): TRIM13 (NM_213590)
    Sino Biological Human cDNA Clone for TRIM13
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for TRIM13
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRIM13

    Cell Line
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    GenScript Custom overexpressing Cell Line Services for TRIM13
    Browse ESI BIO Cell Lines and PureStem Progenitors for TRIM13 
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM13


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    TRI13_HUMAN, O60858: Endoplasmic reticulum membrane; Single-pass membrane protein. Note=Concentrates and
    colocalizes with p62/SQSTM1 and ZFYVE1 at the perinuclear endoplasmic reticulum
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    endoplasmic reticulum5
    nucleus3
    cytosol1
    golgi apparatus1
    mitochondrion1
    peroxisome1
    plasma membrane1

    Gene Ontology (GO): 5 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622intracellular ----
    GO:0005737cytoplasm IDA11331580
    GO:0005789endoplasmic reticulum membrane IDA17314412
    GO:0016021integral component of membrane IEA--
    GO:0097038perinuclear endoplasmic reticulum IDA17314412

    TRIM13 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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    UniProtKB/Swiss-Prot: TRI13_HUMAN, O60858
    Pathway: Protein modification; protein ubiquitination

        Pathway & Disease-focused RT2 Profiler PCR Array including TRIM13: 

              Ubiquitin Ligases in human mouse rat

    Interactions:

        Search GeneGlobe Interaction Network for TRIM13

    STRING Interaction Network Preview (showing 5 interactants - click image to see 8)

    Selected Interacting proteins for TRIM13 (O608583 ENSP000002987724) via UniProtKB, MINT, STRING, and/or I2D (see all 9)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CACNA1CQ139363, ENSP000002663764I2D: score=2 STRING: ENSP00000266376
    MDM2Q009873, ENSP000004172814I2D: score=1 STRING: ENSP00000417281
    UBCP0CG483, ENSP000003448184I2D: score=1 STRING: ENSP00000344818
    AKT1P317493, ENSP000002702024I2D: score=1 STRING: ENSP00000270202
    ROBO2Q9HCK43, ENSP000004171644I2D: score=1 STRING: ENSP00000417164
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 13):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007165signal transduction IMP12761501
    GO:0009653anatomical structure morphogenesis TAS9599022
    GO:0010332response to gamma radiation IEP--
    GO:0010942positive regulation of cell death IDA--
    GO:0016239positive regulation of macroautophagy IDA--

    TRIM13 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for TRIM13 (TRI13)

    3 DrugBank Compounds for TRIM13    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    Dihydromorphine-- 509-60-4targetagonist2985086 2835832 2855368 2828423 1654566
    Diprenorphine-- 14357-78-9target--6287305 6270660 2982865 8626742 6124875
    Etorphine19-Propylorvinol (see all 7)14521-96-1targetagonist3037028 3036471 6247160 2828423 6124875

    1 Novoseek inferred chemical compound relationship for TRIM13 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    calcium 18 8 12409307 (2), 10843194 (1), 10679256 (1)



    TRIM13 for compounds           About GeneDecksing



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for TRIM13 gene (4 alternative transcripts): 
    NM_001007278.2  NM_005798.4  NM_052811.3  NM_213590.2  

    Unigene Cluster for TRIM13:

    Tripartite motif containing 13
    Hs.436922  [show with all ESTs]
    Unigene Representative Sequence: NM_213590
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000442421 ENST00000378183 ENST00000474805 ENST00000420995 ENST00000478111
    ENST00000378182(uc001vdp.1 uc001vdq.1 uc001vdr.1 uc001vds.1)
    ENST00000356017 ENST00000457662 ENST00000298772
    miRNA
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    Block miRNA regulation of human, mouse, rat TRIM13 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate TRIM13 (see all 24):
    hsa-miR-495 hsa-miR-16-2* hsa-miR-513a-5p hsa-miR-3660 hsa-miR-888* hsa-miR-515-5p hsa-miR-499-5p hsa-miR-208b
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    Clone
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    GenScript: all cDNA clones in your preferred vector (see all 4): TRIM13 (NM_213590)
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    Primer
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    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat TRIM13
      QuantiTect SYBR Green Assays in human, mouse, rat TRIM13
      QuantiFast Probe-based Assays in human, mouse, rat TRIM13

    Additional mRNA sequence: 

    AF220127.1 AF241850.1 AJ224819.1 AK001806.1 AK314496.1 AL360196.1 AY191002.1 AY455758.1 
    AY764035.1 BC003579.1 BC063407.1 

    23 DOTS entries:

    DT.213704  DT.100778752  DT.120774819  DT.109500  DT.120774799  DT.95099718  DT.40194635  DT.95341736 
    DT.97834833  DT.120774888  DT.92427411  DT.100713180  DT.302847  DT.95208533  DT.120774735  DT.121638456 
    DT.100734259  DT.120774813  DT.120775008  DT.95279577  DT.97823488  DT.120774940  DT.449720 

    Selected AceView cDNA sequences (see all 229):

    AU134155 AA447003 BF513203 AI056710 BQ018724 CR612306 AI700524 AI978901 
    AF220127 AA443356 AY129654 AI984313 AY191002 NM_005798 AL526890 CA773667 
    BI520507 AA722110 AI702455 AF241850 AI539008 BU607743 BC032343 AA992127 

    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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    TRIM13 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    TRIM13 Expression
    About this image


    TRIM13 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Testis (Reproductive System)    fully expand to see all 3 entries
             Leydig Cells Testis Interstitium
             Testis Interstitium
    TRIM13 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TRIM13 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.436922
        Pathway & Disease-focused RT2 Profiler PCR Array including TRIM13: 
              Ubiquitin Ligases in human mouse rat

    Primer
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    OriGene qPCR primer pairs and template standards for TRIM13
    OriGene qSTAR qPCR primer pairs in human, mouse for TRIM13
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat TRIM13
    QuantiTect SYBR Green Assays in human, mouse, rat TRIM13
    QuantiFast Probe-based Assays in human, mouse, rat TRIM13
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM13

    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for TRIM13 gene from Selected species (see all 13)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Trim131 , 5 tripartite motif-containing 131, 5 86.49(n)1
    88.94(a)1
      14 (33.16 cM)5
    665971  NM_001164220.11  NP_001157692.11 
     615982265 
    chicken
    (Gallus gallus)
    Aves TRIM131 tripartite motif containing 13 72.86(n)
    75.06(a)
      418872  XM_417067.4  XP_417067.1 
    lizard
    (Anolis carolinensis)
    Reptilia TRIM136
    tripartite motif containing 13
    70(a)
    1 ↔ 1
    1(137605129-137606355)
    African clawed frog
    (Xenopus laevis)
    Amphibia BJ075015.12   -- 71.73(n)    BJ075015.1 
    zebrafish
    (Danio rerio)
    Actinopterygii trim131 tripartite motif-containing 13 55.73(n)
    50.89(a)
      553630  NM_001020603.1  NP_001018439.1 


    ENSEMBL Gene Tree for TRIM13 (if available)
    TreeFam Gene Tree for TRIM13 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TRIM13 gene
    FSD1L2  TRIM462  TRIM632  TRIM592  TRIM92  TRIM672  TRIM362  TRIM552  
    MID12  MID22  TRIM542  FSD12  
    3 SIMAP similar genes for TRIM13 using alignment to 2 protein entries:     TRI13_HUMAN (see all proteins):
    DKFZp686N1030    IFT80    TRIM59

    TRIM13 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TRIM13
    PGOHUM00000249167


    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
    About This Section

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    10 SNPs for TRIM13    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs681528231,2
    C--50583887(+) AAAAAC/-AAAAA 3 -- int11Minor allele frequency- -:0.00NA 2
    rs10565431,2,4
    ----see VAR_0135122 mis40--------
    rs604576741,2
    ----50589230(+) AAAAA-/AAT   
       ATATA
    TATAT
    3 -- ut310--------
    rs1480254041,2
    ----50587655(+) TTTTT-/TTGAGAT 3 -- ut310--------
    rs342508591,2
    ----50583887(+) AAAAAA/CAAAAA 3 -- int10--------
    rs721709001,2
    ----50589230(+) AAAAA-/AATATA
            
    TATAT
    3 -- cds10--------
    rs106766271,2
    ----50588496(+) tatat-/ATA   
       TATAC
    acaca
    3 -- ut310--------
    rs723522281,2
    ----50589230(+) AAAAA-/AATA  
            
    TATAT
    3 -- ut310--------
    rs359330961,2
    ----50575427(+) GTCCC-/AAAAAAA 3 -- int10--------
    rs710821321,2
    ----50589230(+) AAAAA-/AATATAT
    ATATATATA
    TATAT
    3 -- ut311Minor allele frequency- AATATATATATATATA:0.00NA 2

    HapMap Linkage Disequilibrium report for TRIM13 (50570024 - 50594617 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for TRIM13:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2661834CNV Deletion23128226
    esv2747402CNV Deletion23290073

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing TRIM13
    DNA2.0 Custom Variant and Variant Library Synthesis for TRIM13

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 605661    OMIM disorders: --

    7 diseases for TRIM13:    
    About MalaCards
    chronic lymphocytic leukemia    b-cell chronic lymphocytic leukemia    mantle cell lymphoma    leukemia
    hypercalcemia    hyperparathyroidism    pertussis


    TRIM13 for disorders           About GeneDecksing

    4 Novoseek inferred disease relationships for TRIM13 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    lymphocytic leukemia chronic b-cell 62.5 1 9599022 (1)
    hypercalcemia 55.7 4 15292296 (2), 16441824 (1)
    hyperparathyroidism 51.6 3 15292296 (2)
    tumors 0 4 18070444 (1), 9599022 (1)


    Export disorders for TRIM13 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)
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    PubMed articles for TRIM13 gene, integrated from 10 sources (see all 46):
    (articles sorted by number of sources associating them with TRIM13)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. A cosmid and cDNA fine physical map of a human chromosome 13q14 region frequently lost in B-cell chronic lymphocytic leukemia and identification of a new putative tumor suppressor gene, Leu5. (PubMed id 9599022)1, 2, 3, 9 Kapanadze B....Yankovsky N. (FEBS Lett. 1998)
    2. The RBCC gene RFP2 (Leu5) encodes a novel transmembrane E3 ubiquitin ligase involved in ERAD. (PubMed id 17314412)1, 2, 9 Lerner M.... Sangfelt O. (Mol. Biol. Cell 2007)
    3. Nucleotide sequence, transcription map, and mutation analysis of the 13q14 chromosomal region deleted in B-cell chronic lymphocytic leukemia. (PubMed id 11264177)1, 2, 9 Migliazza A.... Dalla-Favera R. (Blood 2001)
    4. TRIM13 regulates ER stress induced autophagy and clonogenic ability of the cells. (PubMed id 22178386)1, 2 Tomar D.... Singh R. (Biochim. Biophys. Acta 2012)
    5. Ret finger protein 2 enhances ionizing radiation-induced apoptosis via degradation of AKT and MDM2. (PubMed id 21333377)1, 2 Joo H.M.... Jin Y.W. (Eur. J. Cell Biol. 2011)
    6. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)1, 2 Dunham A.... Ross M.T. (Nature 2004)
    7. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    8. 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. (Genome Res. 2004)
    9. RFP2, c13ORF1, and FAM10A4 are the most likely tumor suppressor gene candidates for B-cell chronic lymphocytic leukemia. (PubMed id 14499696)1, 2 van Everdink W.J.... Buys C.H. (Cancer Genet. Cytogenet. 2003)
    10. The tripartite motif family identifies cell compartments. (PubMed id 11331580)1, 2 Reymond A.... Ballabio A. (EMBO J. 2001)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    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)
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    Entrez Gene: 10206 HGNC: 9976 AceView: RFP2 Ensembl:ENSG00000204977 euGenes: HUgn10206
    ECgene: TRIM13 H-InvDB: TRIM13

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for TRIM13 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TRIM13 gene:
    Search GeneIP for patents involving TRIM13

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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