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TRIM43 Gene

protein-coding   GIFtS: 42
GCID: GC02P096257

Tripartite Motif Containing 43

(Previous name: tripartite motif-containing 43)
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(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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Aliases
Tripartite Motif Containing 431 2
Tripartite Motif-Containing 431 2
TRIM43A2
Tripartite Motif-Containing Protein 432

External Ids:    HGNC: 190151   Entrez Gene: 1298682   Ensembl: ENSG000001440157   UniProtKB: Q96BQ33   

Export aliases for TRIM43 gene to outside databases

Previous GC identifers: GC02P094711 GC02P095725 GC02P095742 GC02P095683 GC02P095621 GC02P090252


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TRIM43 Gene:
TRIM43 (tripartite motif containing 43) is a protein-coding gene. An important paralog of this gene is TRIM77.


(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 at NCBI GenBank:
NC_000002.11  NT_005403.18  NC_018913.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the TRIM43 gene promoter:
         NCX/Ncx   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRIM43 promoter sequence
   Search Chromatin IP Primers for TRIM43

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TRIM43


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

Entrez Gene cytogenetic band: 2q11.1   Ensembl cytogenetic band:  2q11.1   HGNC cytogenetic band: 2q11

TRIM43 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM43 gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P096257:  view genomic region     (about GC identifiers)

Start:
96,257,766 bp from pter      End:
96,265,526 bp from pter
Size:
7,761 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: TRI43_HUMAN, Q96BQ3 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 43  
Size: 446 amino acids; 52265 Da
Secondary accessions: Q53TJ7

Explore the universe of human proteins at neXtProt for TRIM43: NX_Q96BQ3

Explore proteomics data for TRIM43 at MOPED


See TRIM43 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_620155.1  
ENSEMBL proteins: 
 ENSP00000272395  

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(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

Selected InterPro protein domains (see all 8):
 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 Q96BQ3

ProtoNet protein and cluster: Q96BQ3

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


UniProtKB/Swiss-Prot: TRI43_HUMAN, Q96BQ3
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


Find genes that share domains with TRIM43           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 2 molecular function terms:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
GO:0008270zinc ion binding IEA--
     
Find genes that share ontologies with TRIM43           About GenesLikeMe


Phenotypes:
     1 GenomeRNAi human phenotype for TRIM43:
 Cell cycle / mitosis defect 

Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for TRIM43

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(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 COMPARTMENTS: 

CompartmentConfidence
nucleus3
cytosol2
golgi apparatus1

Gene Ontology (GO): 1 cellular component term:    About this table

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

Find genes that share ontologies with TRIM43           About GenesLikeMe


(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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    Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for TRIM43
Interactions:

    Search GeneGlobe Interaction Network for TRIM43

STRING Interaction Network Preview (showing 5 interactants - click image to see 9)

Selected Interacting proteins for TRIM43 (Q96BQ33 ENSP000002723954) via UniProtKB, MINT, STRING, and/or I2D (see all 10)
InteractantInteraction Details
GeneCardExternal ID(s)
UBE2D2P628373, ENSP000003817174I2D: score=2 STRING: ENSP00000381717
UBE2D3P610773, ENSP000003497224I2D: score=2 STRING: ENSP00000349722
UBE2G2P606043, ENSP000003383484I2D: score=2 STRING: ENSP00000338348
UBE2D1P516683, ENSP000003630194I2D: score=2 STRING: ENSP00000363019
UBE2D4Q9Y2X83, ENSP000002224024I2D: score=2 STRING: ENSP00000222402
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(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 TRIM43 (TRI43)



(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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for TRIM43 gene: 
NM_138800.1  

Unigene Cluster for TRIM43:

Tripartite motif containing 43
Hs.232026  [show with all ESTs]
Unigene Representative Sequence: BC015353
1 Ensembl transcript including schematic representation, and UCSC links where relevant:
ENST00000272395(uc002suv.3)
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Additional mRNA sequence: BC015353.1 

1 DOTS entry:

DT.65285421 

7 AceView cDNA sequences:

BC015353 NM_138800 AW015073 BE535440 AW594534 AW594561 AI458559 

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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TRIM43 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GGGAGCCAGG
TRIM43 Expression
About this image

TRIM43 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

TRIM43 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.232026
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In Situ
Assay Products:
 

 
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(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 TRIM43 gene from Selected species (see all 8)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
lizard
(Anolis carolinensis)
Reptilia --
--
(see all 7)
Uncharacterized protein
(see all 7)
31(a)
29(a)
(see all 7)
many ↔ many
many ↔ many
(see all 7)
2(193472385-193473600)
2(193416902-193427069)
zebrafish
(Danio rerio)
Actinopterygii trim1096
tripartite motif containing 109
20(a)
many ↔ many
16(15829385-15839582) ENSDARG00000062429
        Species with no ortholog for TRIM43

ENSEMBL Gene Tree for TRIM43 (if available)
TreeFam Gene Tree for TRIM43 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for TRIM43 gene
TRIM43B  TRIM772  TRIM612  TRIM492  TRIM64B2  TRIM49B2  TRIM64C2  TRIM49C2  
TRIM512  TRIM49D12  TRIM482  
Selected SIMAP similar genes for TRIM43 using alignment to 1 protein entry:     TRI43_HUMAN(see all similar genes):
TRIM43B    TRIM49C    TRIM49B    TRIM51    TRIM49D1    TRIM49D2P
TRIM64    TRIM64B    TRIM64C    TRIM77    TRIM49    TRIML1
TRIM11    TRIM58    TRIM17    TRIM21    TRIM6    TRIM60

Find genes that share paralogs with TRIM43           About GenesLikeMe


Selected Pseudogenes.org Pseudogenes for TRIM43 (see all 20)
PGOHUM00000238425 PGOHUM00000238747 PGOHUM00000242228 PGOHUM00000242237 PGOHUM00000250361


(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)
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Selected SNPs for TRIM43 (see all 117)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 2 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1901367431,2
--96255856(+) TTACAA/GCCATG 1 -- us2k10--------
rs1831707731,2
C--96255964(+) AATGTG/TCCATA 1 -- us2k10--------
rs1878534131,2
--96255965(+) ATGTGC/TCATAA 1 -- us2k10--------
rs1157942851,2
F--96255978(+) TAGATA/GTGGAG 1 -- us2k11Minor allele frequency- G:0.06WA 118
rs1446676741,2
--96256021(+) AAAAAC/TTTTGT 1 -- us2k10--------
rs42993721,2
C--96256261(+) ACACCC/ACTGGC 1 -- us2k11Minor allele frequency- A:0.50CSA 2
rs1924220641,2
--96256275(+) GGTGAC/TATTAT 1 -- us2k10--------
rs1455747971,2
--96256308(+) GTGTGG/TGTGGG 1 -- us2k10--------
rs28741861,2
C,F--96256310(-) CCCCCC/ACACAC 1 -- us2k18Minor allele frequency- A:0.21NA WA EA 368
rs1856144631,2
C--96256604(+) ACAGCA/TTGTGT 1 -- us2k10--------

HapMap Linkage Disequilibrium report for TRIM43 (96257766 - 96265526 bp)

Structural Variations
     Database of Genomic Variants (DGV) 5 variations for TRIM43:    About this table    
Variant IDTypeSubtypePubMed ID
nsv834300CNV Gain17160897
nsv874660CNV Gain21882294
nsv516044CNV Gain+Loss19592680
nsv222OTHER Inversion15895083
nsv7320OTHER Inversion18451855

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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.)
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  --

(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 TRIM43 gene integrated from 10 sources:
(articles sorted by number of sources associating them with TRIM43)
    Utopia: connect your pdf to the dynamic
world of online information

  1. 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)
  2. Systematic analysis of dimeric E3-RING interactions reveals increased combinatorial complexity in human ubiquitination networks. (PubMed id 22493164)1 Woodsmith J....Sanderson C.M. (amp 2012)
  3. Toward an understanding of the protein interaction network of the human liver. (PubMed id 21988832)1 Wang J....Yang X. (Mol. Syst. Biol. 2011)
  4. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
  5. Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network. (PubMed id 19549727)1 Markson G....Sanderson C.M. (Genome Res. 2009)
  6. A comprehensive framework of E2-RING E3 interactions of the human ubiquitin-proteasome system. (PubMed id 19690564)1 van Wijk S.J....Timmers H.T. (Mol. Syst. Biol. 2009)
  7. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
  8. 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. (Proc. Natl. Acad. Sci. U.S.A. 2002)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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)
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Entrez Gene: 129868 HGNC: 19015 AceView: TRIM43 Ensembl:ENSG00000144015 euGenes: HUgn129868
ECgene: TRIM43 H-InvDB: TRIM43

(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 TRIM43 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 TRIM43 gene:
Search GeneIP for patents involving TRIM43

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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from genOway)
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GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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