TRIM40 Gene
protein-coding GIFtS: 44
GCID: GC06P030103
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tripartite motif containing 40(Previous name: tripartite motif-containing 40 )
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Aliases
for TRIM40 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 401 2 | | RING Finger Protein 352 3 | | RNF351 2 3 | | Ring Finger Protein 402 | | Tripartite Motif-Containing 401 2 | | Ring Finger RNF352 | | Probable E3 NEDD8-Protein Ligase2 3 | | Tripartite Motif-Containing Protein 402 |
Export aliases for TRIM40 gene to outside databasesPrevious GC identifers: GC06P030189 GC06P029875 GC06P030210 GC06P030212 GC06P029920 |
Summaries
for TRIM40 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: TRI40_HUMAN, Q6P9F5Function: May function as an E3 ubiquitin-protein ligase of the NEDD8 conjugation pathway. Promotes neddylation ofIKBKG/NEMO, stabilizing NFKBIA, and inhibiting of NF-kappaB nuclear translocation and activity
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Genomic Views
for TRIM40 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_000006.11 NC_018917.1 NT_007592.15 NT_113891.2 NT_167244.1 NT_167245.1 NT_167246.1 NT_167247.1
- NT_167248.1 NT_167249.1
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TRIM40 gene promoter:
Bach1 Elk-1 GCNF IRF-1 LCR-F1 c-Ets-1 PPAR-gamma1 GCNF-1 PPAR-gamma2 GCNF-2
Other transcription factors
Search SABiosciences Chromatin IP Primers for TRIM40
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM40 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 6p22.1 Ensembl cytogenetic band: 6p22.1 HGNC cytogenetic band: 6p21.31TRIM40 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 6 GeneLoc Exon Structure GeneLoc location for GC06P030103: view genomic region
(about GC identifiers)
Start:
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30,103,885 bp from pter |
End:
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30,116,512 bp from pter |
Size:
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12,628 bases |
Orientation:
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plus strand |
6/7 alternative locations (see all 7):
| Chr6+,ALT_REF_LOCI_2 30,093,815-30,145,633 | Chr6+,ALT_REF_LOCI_1 30,040,743-30,061,650 | Chr6+,ALT_REF_LOCI_5 30,097,830-30,109,825 | | Chr6+,ALT_REF_LOCI_4 30,072,734-30,084,736 | Chr6+,ALT_REF_LOCI_6 30,093,435-30,141,644 | Chr6+,ALT_REF_LOCI_3 30,094,214-30,117,878 | |
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Proteins
for TRIM40 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: TRI40_HUMAN, Q6P9F5 (See
protein sequence)Recommended Name: Tripartite motif-containing protein 40 Size: 258 amino acids; 29336 Da
Subunit: Interacts with NEDD8
Secondary accessions: Q5SRJ6 Q5SS36 Q8TD96Alternative splicing: 2 isoforms: Q6P9F5-1 Q6P9F5-2 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for TRIM40: NX_Q6P9F5
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q6P9F5
TRIM40 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_619645.1
ENSEMBL proteins: ENSP00000379826 ENSP00000308310 ENSP00000365914
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005622 | intracellular |
IEA | -- |
TRIM40 for ontologies About GeneDecksing
TRIM40 Antibody Products:
Assay Products for TRIM40: |
Protein
Domains /
Families
for TRIM40 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TRIM40 for domains About GeneDecksing
4 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q6P9F5ProtoNet protein and cluster: Q6P9F5 2 Blocks protein families: IPB000315 B-box zinc finger signature IPB001841 Zn-finger
UniProtKB/Swiss-Prot: TRI40_HUMAN, Q6P9F5Similarity: Belongs to the TRIM/RBCC familySimilarity: Contains 1 B box-type zinc fingerSimilarity: Contains 1 RING-type zinc finger |
Function
for TRIM40 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
|
Function Summary:
UniProtKB/Swiss-Prot: TRI40_HUMAN, Q6P9F5Function: May function as an E3 ubiquitin-protein ligase of the NEDD8 conjugation pathway. Promotes neddylation ofIKBKG/NEMO, stabilizing NFKBIA, and inhibiting of NF-kappaB nuclear translocation and activity
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 TRIM40 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM40 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: TRIM40 (NM_138700) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRIM40 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRIM40 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM40 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0008270 | zinc ion binding |
IEA | -- |
TRIM40 for ontologies About GeneDecksing
|
Pathways & Interactions
for TRIM40 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 TRIM40
4 Interacting proteins for TRIM40 (Q6P9F53) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for TRIM40 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 TRIM40
Search CenterWatch for drugs/clinical trials and news about TRIM40 / TRI40
|
Transcripts
for TRIM40 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 TRIM40 gene: NM_138700.3 Unigene Cluster for TRIM40: Tripartite motif containing 40 Hs.509439 [show with all ESTs]Unigene Representative Sequence: BC0607854 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000396581(uc003npk.2) ENST00000489892 ENST00000307859 ENST00000376724(uc003npm.2)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM40 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM40 (see all 2)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: TRIM40 (NM_138700) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for TRIM40 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRIM40 |
Additional cDNA sequence: BC060785.1 3 DOTS entries: DT.97782817 DT.100799887 DT.100747193 5 AceView cDNA sequences: CR598345 AF489517 NM_138700 BC060785 CR597973
GeneLoc Exon Structure
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Expression
for TRIM40 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
| TRIM40 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: ATCCTCACCT
About this image
See TRIM40 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TRIM40
SOURCE GeneReport for Unigene cluster: Hs.509439
UniProtKB/Swiss-Prot: TRI40_HUMAN, Q6P9F5Tissue specificity: Highly expressed in normal gastrointestinal epithelia but that is down-regulated ingastrointestinal carcinomas and chronic inflammatory lesions of the gastrointestinal tract
SABiosciences Expression via Pathway-Focused PCR Array including TRIM40:
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRIM40
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat TRIM40 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRIM40 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRIM40 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM40 |
Orthologs
for TRIM40 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 TRIM40 gene from 2/7 species (see all 7) About this table
ENSEMBL Gene Tree for TRIM40 (if available)
TreeFam Gene Tree for TRIM40 (if available) |
Paralogs
for TRIM40 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for TRIM40 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 6 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TRIM40 (30103885 - 30116512 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for TRIM40: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRIM40 |
|
Disorders
/ Diseases
for TRIM40 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
|
TRIM40 for disorders About GeneDecksing
4  diseases for TRIM40: About MalaCardssystemic lupus erythematosus lupus erythematosus multiple sclerosis carcinoma
Human Genome Epidemiology (HuGE) Navigator: TRIM40 (3 documents)
Export disorders for TRIM40 gene to outside databases
|
Publications
for TRIM40 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 TRIM40 gene integrated from 9 sources:
(articles sorted by number of sources associating them with TRIM40) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- TRIM40 promotes neddylation of IKKI^ and is downregula ted in gastrointestinal cancers. (PubMed id 21474709)1, 2 Noguchi K....Hatakeyama S. (2011)
- Rapid evolution of major histocompatibility complex class I genes in primates generates new disease alleles in humans via hitchhiking diversity. (PubMed id 16702430)1, 2 Shiina T.... Bahram S. (2006)
- 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)
- Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
- A major histocompatibility Class I locus contributes to multiple sclerosis susceptibility independently from HLA-DRB1*15:01. (PubMed id 20593013)1 Cree B.A.... . (2010)
- High-density SNP screening of the major histocompatib ility complex in systemic lupus erythematosus demonstrates strong evidence for independent susceptibility regions. (PubMed id 19851445)1 Barcellos L.F....Criswell L.A. (2009)
- The DNA sequence and analysis of human chromosome 6. (PubMed id 14574404)2 Mungall A.J.... Beck S. (2003)
- Cluster of TRIM genes in the human MHC class I region sharing the B30.2 domain. (PubMed id 12622776)2 Meyer M....Trowsdale J. (2003)
- 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. (2002)
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External Searches for TRIM40 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TRIM40 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TRIM40 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TRIM40 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 TRIM40 | Pharmacogenomics, SNPs, Pathways |
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| | |
About This Section
| Patent Information for TRIM40 gene:
Search GeneIP for patents involving TRIM40
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TRIM40 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
|
 | |
 | |
 |
| | |  | Browse OriGene Antibodies | | OriGene shRNA RFP for TRIM40 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for TRIM40 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TRIM40 | | | OriGene Protein Over-expression Lysate for TRIM40 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for TRIM40 | | Browse 3'-UTR reporter clones for miRNA target validation | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM40 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TRIM40 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | Browse OriGene full length recombinant human proteins expressed in human HEK293 cells | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for TRIM40 | | OriGene Custom Protein Services for TRIM40 | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat TRIM40 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TRIM40 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM40 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat TRIM40 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TRIM40 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TRIM40 |
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 |  |  |  | |
| | | | Search Tocris compounds for TRIM40 |
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 | | | TRIM40 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM40 |
|  |  |  | | | | Search ThermoFisher Antibodies for TRIM40 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat TRIM40 |
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