Trim62 (tripartite motif-containing 62) - Rat Genome Database

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Gene: Trim62 (tripartite motif-containing 62) Rattus norvegicus
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Symbol: Trim62
Name: tripartite motif-containing 62
RGD ID: 1586169
Description: Predicted to enable identical protein binding activity; transcription coactivator activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including negative regulation of viral transcription; positive regulation of NF-kappaB transcription factor activity; and positive regulation of antifungal innate immune response. Predicted to act upstream of or within negative regulation of epithelial to mesenchymal transition. Predicted to be active in cytoplasm. Orthologous to human TRIM62 (tripartite motif containing 62); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A; gentamycin.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase TRIM62; LOC313045; similar to tripartite motif-containing 62; tripartite motif-containing protein 62
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25141,230,830 - 141,260,629 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5141,231,523 - 141,259,915 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.05147,068,725 - 147,099,024 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5147,069,616 - 147,095,242 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05150,799,760 - 150,830,499 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera5139,714,974 - 139,746,021 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18248090   PMID:23077300   PMID:23402750   PMID:24890125  


Genomics

Comparative Map Data
Trim62
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.25141,230,830 - 141,260,629 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5141,231,523 - 141,259,915 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.05147,068,725 - 147,099,024 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5147,069,616 - 147,095,242 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05150,799,760 - 150,830,499 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera5139,714,974 - 139,746,021 (+)NCBICelera
Cytogenetic Map5q36NCBI
TRIM62
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38133,145,399 - 33,182,043 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl133,145,399 - 33,182,059 (-)EnsemblGRCh38hg38GRCh38
GRCh37133,611,000 - 33,647,644 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36133,383,591 - 33,419,854 (-)NCBINCBI36Build 36hg18NCBI36
Build 34133,280,096 - 33,316,360NCBI
Celera131,881,193 - 31,917,797 (-)NCBICelera
Cytogenetic Map1p35.1NCBI
HuRef131,726,962 - 31,763,317 (-)NCBIHuRef
CHM1_1133,726,505 - 33,763,168 (-)NCBICHM1_1
T2T-CHM13v2.0133,005,274 - 33,041,915 (-)NCBIT2T-CHM13v2.0
Trim62
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394128,777,837 - 128,805,119 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4128,777,373 - 128,805,121 (+)EnsemblGRCm39 Ensembl
GRCm384128,884,044 - 128,911,326 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4128,883,580 - 128,911,328 (+)EnsemblGRCm38mm10GRCm38
MGSCv374128,561,384 - 128,588,570 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364128,386,444 - 128,413,630 (+)NCBIMGSCv36mm8
Celera4127,221,836 - 127,249,023 (+)NCBICelera
Cytogenetic Map4D2.2NCBI
Trim62
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545211,347,741 - 11,378,040 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495545211,348,001 - 11,377,413 (-)NCBIChiLan1.0ChiLan1.0
TRIM62
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1133,614,555 - 33,650,859 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl133,614,555 - 33,650,859 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0132,429,824 - 32,467,185 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
TRIM62
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1268,247,138 - 68,265,530 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl268,247,139 - 68,264,754 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha264,814,365 - 64,845,785 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0268,798,384 - 68,829,793 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl268,798,365 - 68,829,788 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1265,611,056 - 65,642,474 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0266,633,570 - 66,665,005 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0267,625,508 - 67,656,947 (+)NCBIUU_Cfam_GSD_1.0
Trim62
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505850,174,190 - 50,204,740 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647415,998,996 - 16,029,555 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM62
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl689,406,478 - 89,442,746 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1689,406,470 - 89,442,794 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2683,434,103 - 83,470,360 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TRIM62
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12099,697,568 - 99,731,660 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2099,698,497 - 99,731,379 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603316,958,127 - 16,993,441 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Trim62
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476416,200,539 - 16,230,780 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476416,200,539 - 16,230,713 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Trim62
155 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:61
Interacting mature miRNAs:67
Transcripts:ENSRNOT00000072908
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)594858972143070159Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5129132447151006154Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5108845856153845856Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)597059760147465714Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5129132428143070159Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5120740824143608494Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
1641912Alcrsp18Alcohol response QTL 18response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)535189153141643988Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5108845856153845856Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5120740824151018848Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)550328551141643988Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
1578673Bmd13Bone mineral density QTL 134.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)5103689353148689353Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)569540295151018848Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5105999803150999803Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5106906205151906205Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)599216724148607142Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
61426Scl2Serum cholesterol level QTL 27.30.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)559793399143070159Rat
8657050Bw146Body weight QTL 14619.840.001body mass (VT:0001259)body weight gain (CMO:0000420)5108938288153938288Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5106906205151906205Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5106906205151906205Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5106906205151906205Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5106906205151906205Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat

Markers in Region
D5Rat238  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25141,235,860 - 141,236,088 (+)MAPPERmRatBN7.2
Rnor_6.05147,072,901 - 147,073,128NCBIRnor6.0
Rnor_5.05150,803,306 - 150,803,533UniSTSRnor5.0
Celera5139,718,888 - 139,719,115UniSTS
SHRSP x BN Map578.5399RGD
SHRSP x BN Map578.5399UniSTS
Cytogenetic Map5q13UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 39 18
Low 3 39 25 13 17 13 3 6 35 35 23 11 3
Below cutoff 4 30 28 2 28 5 5 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000072908   ⟹   ENSRNOP00000066009
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl5147,069,616 - 147,095,242 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000110102   ⟹   ENSRNOP00000096911
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5141,231,523 - 141,259,915 (+)Ensembl
RefSeq Acc Id: XM_039111527   ⟹   XP_038967455
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.25141,230,830 - 141,260,629 (+)NCBI
Protein Sequences
Protein RefSeqs XP_038967455 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL80515 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: ENSRNOP00000066009   ⟸   ENSRNOT00000072908
RefSeq Acc Id: XP_038967455   ⟸   XM_039111527
- UniProtKB: M0R947 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000096911   ⟸   ENSRNOT00000110102
Protein Domains
B box-type   B30.2/SPRY   RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R947-F1-model_v2 AlphaFold M0R947 1-475 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586169 AgrOrtholog
BioCyc Gene G2FUF-39831 BioCyc
Ensembl Genes ENSRNOG00000049496 Ensembl
  ENSRNOG00000067048 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000096911 ENTREZGENE
  ENSRNOP00000096911.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000110102 ENTREZGENE
  ENSRNOT00000110102.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.920 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
InterPro B30.2/SPRY UniProtKB/TrEMBL
  B30.2/SPRY_sf UniProtKB/TrEMBL
  Butyrophylin UniProtKB/TrEMBL
  ConA-like_dom UniProtKB/TrEMBL
  PRY UniProtKB/TrEMBL
  PRY/SPRY_TRIM62 UniProtKB/TrEMBL
  SPRY_rcpt UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
NCBI Gene 313045 ENTREZGENE
Pfam PRY UniProtKB/TrEMBL
  SPRY UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
PhenoGen Trim62 PhenoGen
PRINTS BUTYPHLNCDUF UniProtKB/TrEMBL
PROSITE B302_SPRY UniProtKB/TrEMBL
  ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
SMART PRY UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
  SPRY UniProtKB/TrEMBL
Superfamily-SCOP ConA_like_lec_gl UniProtKB/TrEMBL
UniProt M0R947 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Trim62  tripartite motif-containing 62  Trim62  tripartite motif-containing 62  Data Merged 737654 PROVISIONAL
2021-08-09 Trim62  tripartite motif-containing 62      Symbol and Name status set to provisional 45752 PROVISIONAL
2008-03-05 Trim62  tripartite motif-containing 62  LOC313045  similar to tripartite motif-containing 62  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC313045  similar to tripartite motif-containing 62      Symbol and Name status set to provisional 70820 PROVISIONAL