Trim42 (tripartite motif-containing 42) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Trim42 (tripartite motif-containing 42) Mus musculus
Analyze
Symbol: Trim42
Name: tripartite motif-containing 42
RGD ID: 1551426
MGI Page MGI
Description: Predicted to have ubiquitin-protein transferase activity. Predicted to be involved in positive regulation of transcription, DNA-templated. Predicted to localize to chromatin and nucleoplasm. Orthologous to human TRIM42 (tripartite motif containing 42); INTERACTS WITH beta-hexachlorocyclohexane; folic acid; indinavir.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 4930486B16Rik; tripartite motif-containing protein 42
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39997,231,615 - 97,252,011 (-)NCBIGRCm39mm39
GRCm38997,349,562 - 97,369,958 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl997,349,562 - 97,369,958 (-)EnsemblGRCm38mm10GRCm38
MGSCv37997,249,981 - 97,270,377 (-)NCBIGRCm37mm9NCBIm37
MGSCv36997,158,918 - 97,179,310 (-)NCBImm8
Celera996,903,472 - 96,923,707 (-)NCBICelera
Cytogenetic Map9E3.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
chromatin  (IBA)
nucleoplasm  (IBA)

Molecular Function

References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:12477932   PMID:15618518   PMID:16141072   PMID:16141073   PMID:18287559   PMID:21677750   PMID:21873635   PMID:32325033  


Genomics

Comparative Map Data
Trim42
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39997,231,615 - 97,252,011 (-)NCBIGRCm39mm39
GRCm38997,349,562 - 97,369,958 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl997,349,562 - 97,369,958 (-)EnsemblGRCm38mm10GRCm38
MGSCv37997,249,981 - 97,270,377 (-)NCBIGRCm37mm9NCBIm37
MGSCv36997,158,918 - 97,179,310 (-)NCBImm8
Celera996,903,472 - 96,923,707 (-)NCBICelera
Cytogenetic Map9E3.3NCBI
TRIM42
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl3140,678,064 - 140,701,150 (+)EnsemblGRCh38hg38GRCh38
GRCh383140,678,053 - 140,701,150 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh373140,396,866 - 140,419,992 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363141,879,571 - 141,902,681 (+)NCBINCBI36hg18NCBI36
Build 343141,879,578 - 141,902,689NCBI
Celera3138,820,504 - 138,843,650 (+)NCBI
Cytogenetic Map3q23NCBI
HuRef3137,770,829 - 137,793,927 (+)NCBIHuRef
CHM1_13140,360,480 - 140,383,594 (+)NCBICHM1_1
Trim42
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.08105,205,041 - 105,226,541 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8105,204,993 - 105,226,588 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08104,651,862 - 104,672,890 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera897,337,231 - 97,358,211 (-)NCBICelera
Cytogenetic Map8q31NCBI
Trim42
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555084,959,416 - 4,984,186 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555084,959,495 - 4,984,166 (-)NCBIChiLan1.0ChiLan1.0
TRIM42
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13145,312,284 - 145,335,422 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3145,312,284 - 145,335,422 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v03137,713,992 - 137,737,130 (+)NCBIMhudiblu_PPA_v0panPan3
TRIM42
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2336,712,334 - 36,761,059 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12336,712,142 - 36,761,359 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Trim42
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049365402,656,256 - 2,679,541 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM42
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1381,539,067 - 81,567,702 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11381,537,589 - 81,567,393 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21389,381,583 - 89,429,877 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRIM42
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl1549,869,281 - 49,882,176 (-)Ensembl
ChlSab1.11549,859,731 - 49,883,086 (-)NCBI
Trim42
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473017,299,792 - 17,330,817 (+)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4142042Alpq3_malcohol preference QTL 3 (mouse)Not determined93739490198819654Mouse
4141224Dxmod_mdoxorubicin nephropathy modifier (mouse)Not determined49541121101528921Mouse
1301241Renf1_mrenal failure 1 (mouse)Not determined95212317899910428Mouse
13207569Tcq13_mtotal cholesterol QTL 13 (mouse)959990000109260000Mouse
4141833W10q13_mweight 10 weeks QTL 13 (mouse)Not determined63332429120362868Mouse
4141545Tailaq2_mtail length adjusted QTL 2 (mouse)Not determined63332429120362868Mouse
1357635Splq4_mspleen weight QTL 4 (mouse)Not determined963332429120362868Mouse
1301636Lith5_mlithogenic gene 5 (mouse)Not determined966207024100207122Mouse
10045638Heal29_mwound healing/regeneration 29 (mouse)Not determined967124167101124167Mouse
1357610Vtbt8_mvertebral trabecular bone trait 8 (mouse)Not determined968897510102897652Mouse
1301924Bmd10_mbone mineral density 10 (mouse)Not determined968897510102897652Mouse
1301302Pas4_mpulmonary adenoma susceptibility 4 (mouse)Not determined969239845103239920Mouse
10412174Habiir4_mhyperoxic acute lung injury imprinted region 4 (mouse)Not determined96936046598819654Mouse
1301621Hpic1_mhaloperidol-induced catalepsy 1 (mouse)Not determined969546513103546645Mouse
1301573Etohcta8_methanol conditioned taste aversion 8 (mouse)Not determined972977005106977152Mouse
10054068El8_mepilepsy 8 (mouse)Not determined972977005106977152Mouse
1301725Lifespan1_mlife span 1 (mouse)Not determined974368177108368325Mouse
1302065El1_mepilepsy 1 (mouse)Not determined975775364114474379Mouse
10054492El7_mepilepsy 7 (mouse)Not determined975775364114474379Mouse
1301869Tbbmd4_mtotal body bone mineral density 4 (mouse)Not determined976117105101528921Mouse
1301407Rapop2_mradiation-induced apoptosis 2 (mouse)Not determined976535936110536130Mouse
1301192Skts6_mskin tumor susceptibility 6 (mouse)Not determined978640645112640755Mouse
10401247Bglu14_mblood glucose level 14 (mouse)Not determined979397810113397888Mouse
1301732Char1_mP. chabaudi malaria resistance QTL 1 (mouse)Not determined981798268115798392Mouse
1300884Sluc11_msusceptibility to lung cancer 11 (mouse)Not determined982910333116910428Mouse
1357461Idd2_minsulin dependent diabetes susceptibility 2 (mouse)Not determined982910333116910428Mouse
10766454Char10_mP. chabaudi malaria resistance QTL 10 (mouse)982910333116910428Mouse
1301487Nociq1_mnociceptive sensitivity inflammatory QTL 1 (mouse)Not determined984528818118528921Mouse
10412180Msam3_mmuscle, skeletal, activity measure 3 (mouse)Not determined985897510108641186Mouse
1300549Bbaa17_mB. burgdorferi-associated arthritis 17 (mouse)Not determined986230401120230530Mouse
1302103Dob2_mdietary obesity 2 (mouse)Not determined986239845120289624Mouse
11251716Siim2_mstress induced immobility 2 (mouse)986748483120748483Mouse
12880422V25Dq6_mvitamin D inactive form serum level QTL 6 (mouse)987800000121800000Mouse
10412242Alpq8_malcohol preference QTL 8 (mouse)Not determined989284925123284925Mouse
1301649Psl1_mpromotion susceptibility QTL 1 (mouse)Not determined989412277123412396Mouse
18182932Metl3_mmetabolite locus 3, N-acetylglutamate (mouse)989563342123563342Mouse
1357657Pymr_mPlasmodium yoelli malaria resistance (mouse)Not determined989977005118938021Mouse
12910770Splic1_mspleen iron content 1 (mouse)991413879124595110Mouse
12910772Lvic6_mliver iron content 6 (mouse)991413879124595110Mouse
12910773Splic3_mspleen iron content 3 (mouse)991413879124595110Mouse
1558767Skmw11_mskeletal muscle weight 11 (mouse)Not determined991641084124595110Mouse
13463474Hbbcq5_mhemoglobin concentration QTL 5 (mouse)991641084124595110Mouse
13463475Hctq7_mhematocrit QTL 7 (mouse)991641084124595110Mouse
13463477Rbc9_mred blood cell count 9 (mouse)991641084124595110Mouse
13463478Mchq18_mmean corpuscular hemoglobin QTL 18 (mouse)991641084124595110Mouse
13463480Mchcq2_mmean corpuscular hemoglobin concentration QTL 2 (mouse)991641084124595110Mouse
12904937Edlmmq9_mextensor digitorum longus muscle mass QTL 9 (mouse)991683173124595110Mouse
12904947Tammq7_mtibialis anterior muscle mass QTL 7 (mouse)991683173124595110Mouse
12904961Gmmq7_mgastrocnemius muscle mass QTL 7 (mouse)991683173124595110Mouse
1302001Bdln5_mbody length 5 (mouse)Not determined993762590124595110Mouse
1301484Bwq6_mbody weight (mouse)Not determined993762590124595110Mouse
14746992Manh67_mmandible shape 67 (mouse)994036768124595110Mouse
11081166Psl5_mpromotion susceptibility QTL 5 (mouse)994981301112872929Mouse
11537364Cnes5_mC. neoformans susceptibility locus 5 (mouse)996917590124595110Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:77
Interacting mature miRNAs:83
Transcripts:ENSMUST00000035026
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000035026   ⟹   ENSMUSP00000035026
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl997,349,562 - 97,369,958 (-)Ensembl
RefSeq Acc Id: NM_030219   ⟹   NP_084495
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39997,231,615 - 97,252,011 (-)NCBI
GRCm38997,349,562 - 97,369,958 (-)ENTREZGENE
MGSCv37997,249,981 - 97,270,377 (-)RGD
Celera996,903,472 - 96,923,707 (-)RGD
cM Map9 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_084495 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI11826 (Get FASTA)   NCBI Sequence Viewer  
  BAB31824 (Get FASTA)   NCBI Sequence Viewer  
  EDL20976 (Get FASTA)   NCBI Sequence Viewer  
  Q9D2H5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_084495   ⟸   NM_030219
- UniProtKB: Q9D2H5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000035026   ⟸   ENSMUST00000035026
Protein Domains
COS   Fibronectin type-III

Promoters
RGD ID:8670516
Promoter ID:EPDNEW_M13289
Type:multiple initiation site
Name:Trim42_1
Description:Mus musculus tripartite motif-containing 42 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38997,370,006 - 97,370,066EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1926161 AgrOrtholog
Ensembl Genes ENSMUSG00000032451 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000035026 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000035026 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
  3.30.40.10 UniProtKB/Swiss-Prot
InterPro COS_domain UniProtKB/Swiss-Prot
  FN3_dom UniProtKB/Swiss-Prot
  FN3_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  TRIM42_RING-HC UniProtKB/Swiss-Prot
  Znf_B-box UniProtKB/Swiss-Prot
  Znf_RING UniProtKB/Swiss-Prot
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot
  Znf_RING_CS UniProtKB/Swiss-Prot
KEGG Report mmu:78911 UniProtKB/Swiss-Prot
MGD MGI:1926161 ENTREZGENE
NCBI Gene 78911 ENTREZGENE
Pfam fn3 UniProtKB/Swiss-Prot
  zf-B_box UniProtKB/Swiss-Prot
PhenoGen Trim42 PhenoGen
PROSITE COS UniProtKB/Swiss-Prot
  FN3 UniProtKB/Swiss-Prot
  ZF_BBOX UniProtKB/Swiss-Prot
  ZF_RING_1 UniProtKB/Swiss-Prot
  ZF_RING_2 UniProtKB/Swiss-Prot
SMART BBOX UniProtKB/Swiss-Prot
  FN3 UniProtKB/Swiss-Prot
  RING UniProtKB/Swiss-Prot
Superfamily-SCOP SSF49265 UniProtKB/Swiss-Prot
UniGene Mm.108347 ENTREZGENE
UniProt Q14DU2_MOUSE UniProtKB/TrEMBL
  Q9D2H5 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary E9QN55 UniProtKB/Swiss-Prot