TRIM6 Gene
protein-coding GIFtS: 47
GCID: GC11P005617
|
|
tripartite motif containing 6(Previous name: tripartite motif-containing 6 )
| |
Aliases
for TRIM6 gene
(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 61 2 | | RNF891 2 3 | | Tripartite Motif-Containing 61 2 | | RING Finger Protein 892 3 | | Tripartite Motif-Containing Protein 62 | | EC 6.3.28 |
Export aliases for TRIM6 gene to outside databasesPrevious GC identifers: GC11P006365 GC11P005919 GC11P005576 GC11P005581 GC11P005573 GC11P005276 |
Summaries
for TRIM6 gene(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 TRIM6:
The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes threezinc-binding domains, a RING, B-box type 1 and B-box type 2 domain, and a coiled-coil region. The protein localizes tothe nucleus, but its specific function has not been identified. This gene is mapped to chromosome 11p15, where itresides within a TRIM gene cluster. Alternative splicing results in multiple transcript variants. A read-throughtranscript from this gene into the downstream TRIM34 gene has also been observed, which results in a fusion productfrom these neighboring family members. (provided by RefSeq, Oct 2010)
Gene Wiki entry for TRIM6
|
Genomic Views
for TRIM6 gene
(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_000011.9 NC_018922.1 NT_009237.18
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TRIM6 gene promoter:
Sp1 AP-1 MyoD LCR-F1 Meis-1 C/EBPalpha
Other transcription factors
Search SABiosciences Chromatin IP Primers for TRIM6
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM6 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 11p15.4 Ensembl cytogenetic band: 11p15.4 HGNC cytogenetic band: 11p15TRIM6 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 11 GeneLoc Exon Structure GeneLoc location for GC11P005617: view genomic region
(about GC identifiers)
Start:
|
5,617,339 bp from pter |
End:
|
5,634,188 bp from pter |
Size:
|
16,850 bases |
Orientation:
|
plus strand |
|
Proteins
for TRIM6 gene
(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: TRIM6_HUMAN, Q9C030 (See
protein sequence)Recommended Name: Tripartite motif-containing protein 6 Size: 488 amino acids; 56400 Da
Subunit: Homomultimer (Probable)
Sequence caution: Sequence=BAB17050.1; Type=Miscellaneous discrepancy; Note=Chimeric cDNA. The biological existence andrelevance of this transcript product of both TRIM34 (AC Q9BYJ4) and TRIM6 genes and coding for a chimeric protein of842 residues is uncertain;
Secondary accessions: A8K2A7 Q86WZ8 Q9HCR1Alternative splicing: 2 isoforms: Q9C030-1 Q9C030-2 Explore the universe of human proteins at neXtProt for TRIM6: NX_Q9C030
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9C030
4/6 DME Specific Peptides for TRIM6 (Q9C030) (see all 6)
TRIM6 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (4 alternative transcripts):
NP_001003818.1 NP_001185573.1 NP_001185574.1 NP_477514.1
ENSEMBL proteins: ENSP00000278302 ENSP00000414108 ENSP00000427704 ENSP00000369450 ENSP00000369440 ENSP00000399215 ENSP00000421802 ENSP00000421079
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table
TRIM6 for ontologies About GeneDecksing
TRIM6 Antibody Products:
Assay Products for TRIM6: |
Protein
Domains /
Families
for TRIM6 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TRIM6 for domains About GeneDecksing
5/10 InterPro domains/families (see all 10):Graphical View of Domain Structure for InterPro Entry Q9C030ProtoNet protein and cluster: Q9C030 4 Blocks protein families: IPB000315 B-box zinc finger signature IPB001841 Zn-finger IPB003879 Butyrophylin C-terminal DUF signature IPB006574 SPRY-associated domain
UniProtKB/Swiss-Prot: TRIM6_HUMAN, Q9C030Similarity: Belongs to the TRIM/RBCC familySimilarity: Contains 1 B box-type zinc fingerSimilarity: Contains 1 B30.2/SPRY domainSimilarity: Contains 1 RING-type zinc finger |
Function
for TRIM6 gene
(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
|
Enzyme Number (IUBMB): EC 6.3.22
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM6 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM6 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM6 |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0003674 | molecular_function |
ND | -- | | GO:0008270 | zinc ion binding |
IEA | -- |
TRIM6 for ontologies About GeneDecksing
|
Pathways & Interactions
for TRIM6 gene
(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 TRIM6
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
3 Interacting proteins for TRIM6 (Q9C0303 ENSP000003694404) via UniProtKB, MINT, STRING, and/or I2DAbout this table
Gene Ontology (GO): 1 biological process term (GO ID links to tree view): About this table
TRIM6 for ontologies About GeneDecksing
|
Drugs & Compounds
for TRIM6 gene(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 Tocris compounds for TRIM6
Search CenterWatch for drugs/clinical trials and news about TRIM6
|
Transcripts
for TRIM6 gene(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 TRIM6 gene (4 alternative transcripts): NM_001003818.2 NM_001198644.1 NM_001198645.1 NM_058166.4 Unigene Cluster for TRIM6: Tripartite motif containing 6 Hs.729048 [show with all ESTs]Unigene Representative Sequence: NM_00100381912 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000278302(uc009yeo.2 uc010qzj.2 uc001mbc.2) ENST00000424369
ENST00000507320 ENST00000515469 ENST00000380107 ENST00000511284 ENST00000380097(uc001mbe.3 uc001mbd.3 uc010qzk.2 uc010qzl.2)
ENST00000445329(uc009yep.1) ENST00000515022 ENST00000506134 ENST00000469187
ENST00000481603
Clone
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OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Additional cDNA sequence: AB039902.1 AB039904.1 AF220030.1 AF220143.1 AF220144.1 AK023210.1 AK027664.1 AK027876.1 AK290172.1 AK293295.1 AK298301.1 AK316178.1 AK316289.1 AL583914.1 BC047564.1 BC065575.1 CR749260.1 DQ656035.2 17 DOTS entries: DT.99959768 DT.92423479 DT.40111750 DT.120723408 DT.100754869 DT.70101432 DT.100754870 DT.454233 DT.120723371 DT.101963868 DT.92423480 DT.100772540 DT.40310084 DT.95359594 DT.120723348 DT.120723482 DT.75161645 24/143 AceView cDNA sequences (see all 143): BX503815 AK023210 AI628362 BE873135 AA769791 NM_001003818 AA227117 AW612116 CD242511 BE501740 NM_001003827 NM_058166 AI207149 BE503226 BE669989 NM_130389 NM_021616 AA625445 AA872533 CR624250 AV661318 BM989990 AB039902 BE220093
GeneLoc Exon Structure
5/9 Alternative Splicing Database (ASD) splice patterns (SP) for TRIM6 (see all 9) About this scheme
| ExUns: | 1 | ^ | 2a | · | 2b | ^ | 3a | · | 3b | ^ | 4 | ^ | 5a | · | 5b | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10a | · | 10b | ^ | 11 | ^ | 12a | · | 12b | ^ | 13a | · | 13b | ^ | 14 | ^ | 15 | ^ | 16 |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | | | | | | | | | | | | | - | | - | | - | | | | | | | | | | | | | | | | |
| SP3: | | | - | | - | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | - | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for TRIM6
|
Expression
for TRIM6 gene
(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
| TRIM6 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATTGCTAAAA
About this image
See TRIM6 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TRIM6
SOURCE GeneReport for Unigene cluster: Hs.729048
SABiosciences Custom PCR Arrays for TRIM6
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRIM6
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM6 |
Orthologs
for TRIM6 gene
(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 TRIM6 gene from 3/8 species (see all 8) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
lizard
(Anolis carolinensis) |
Reptilia |
TRIM586 |
-- |
33(a) |
1 → many |
GL343252.1(1250786-1269672) |
tropical clawed frog
(Xenopus tropicalis) |
Amphibia |
AL895251.22 |
-- |
74.12(n) |
|
AL895251.2 |
zebrafish
(Danio rerio) |
Actinopterygii |
trim476 |
tripartite motif containing 47 |
21(a) |
possible ortholog |
10(26752552-26762609) |
ENSEMBL Gene Tree for TRIM6 (if available)
TreeFam Gene Tree for TRIM6 (if available) |
Paralogs
for TRIM6 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for TRIM6 gene
- TRIM42 TRIM72 TRIM262 TRIM392 TRIM342 TRIML12 TRIM272 TRIM582
- TRIM682 TRIM102 TRIM152 TRIM602 TRIM222 TRIM172 TRIM52 TRIM6-TRIM342
- TRIM212 TRIM382 TRIM39-RPP212 TRIM112
18/34 SIMAP similar genes for TRIM6 using alignment to 5 protein entries: TRIM6_HUMAN (see all proteins)
(see all similar genes):DKFZp781D1977 TRIM6-TRIM34 TRIM5 TRIM34 TRIM22 TRIM64C
TRIM41 TRIM21 TRIM68 DKFZp686F23130 TRIM38 TRIM58
TRIM4 MEFV TRIM39 TRIM31 TRIM11 TRIM60
TRIM6 for paralogs About GeneDecksing
|
Genomic Variants
for TRIM6 gene(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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 11 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TRIM6 (5617339 - 5634188 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for TRIM6
1 CNV: 34458
1 Indel: 10866 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRIM6 |
|
Disorders
/ Diseases
for TRIM6 gene
(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
|
 TRIM6 for disorders About MalaCards
TRIM6 for disorders About GeneDecksing
OMIM gene information: 607564
OMIM disorders: --
Export disorders for TRIM6 gene to outside databases
|
Publications
for TRIM6 gene (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 TRIM6 gene, integrated from 9 sources (see all 13):
(articles sorted by number of sources associating them with TRIM6) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- The tripartite motif family identifies cell compartments. (PubMed id 11331580)1, 2, 3 Reymond A.... Ballabio A. (2001)
- 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)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Molecular cloning of ring finger protein 21 (RNF21)/interferon- responsive finger protein (ifp1), which possesses two RING-B box- coiled coil domains in tandem. (PubMed id 11013086)1, 2 Orimo A.... Muramatsu M. (2000)
- Discordant evolution of the adjacent antiretroviral genes TRIM22 and TRIM5 in mammals. (PubMed id 18159944)1, 9 Sawyer S.L....Malik H.S. (2007)
- Functional replacement of the RING, B-box 2, and coiled-coil domains of tripartite motif 5alpha (TRIM5alpha) by heterologous TRIM domains. (PubMed id 16775307)1, 9 Li X....Sodroski J. (2006)
- Unique features of TRIM5alpha among closely related human TRIM family members. (PubMed id 17156811)1, 9 Li X....Sodroski J. (2007)
- TRIM6 interacts with Myc and maintains the pluripotenc y of mouse embryonic stem cells. (PubMed id 22328504)1 Sato T....Hatakeyama S. (2012)
- 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)
- Structural and functional insights into the B30.2/SPRY domain. (PubMed id 16498413)1 Woo J.S....Oh B.H. (2006)
|
External Searches for TRIM6 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TRIM6 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TRIM6 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TRIM6 gene(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
|
| Name | Description |
| PharmGKB entry for TRIM6 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TRIM6 gene:
Search GeneIP for patents involving TRIM6
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TRIM6 gene(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
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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| |
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| |  |  |  |  | | | | |
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 | | | TRIM6 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM6 |
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| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRIM6 |
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