Trim38 (tripartite motif-containing 38) - Rat Genome Database

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Gene: Trim38 (tripartite motif-containing 38) Mus musculus
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Symbol: Trim38
Name: tripartite motif-containing 38
RGD ID: 1616586
MGI Page MGI
Description: Predicted to have several functions, including protein homodimerization activity; transcription coactivator activity; and ubiquitin protein ligase activity. Involved in several processes, including cellular protein metabolic process; negative regulation of defense response to virus; and positive regulation of viral genome replication. Predicted to localize to cytosol and nucleoplasm. Orthologous to human TRIM38 (tripartite motif containing 38); INTERACTS WITH 1,2-dichloroethane; triptonide; (S)-colchicine (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: E3 ubiquitin-protein ligase TRIM38; Gm23; RING finger protein 15; tripartite motif-containing protein 38; zinc finger protein RoRet
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391323,962,483 - 23,975,721 (+)NCBIGRCm39mm39
GRCm39 Ensembl1323,953,896 - 23,975,511 (+)Ensembl
GRCm381323,778,500 - 23,791,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1323,769,913 - 23,791,528 (+)EnsemblGRCm38mm10GRCm38
MGSCv371323,874,441 - 23,883,364 (+)NCBIGRCm37mm9NCBIm37
MGSCv361323,790,037 - 23,798,960 (+)NCBImm8
Celera1324,014,284 - 24,023,174 (+)NCBICelera
Cytogenetic Map13A3.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
1. RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12466851   PMID:12477932   PMID:21267068   PMID:21873635   PMID:22323536   PMID:22539786   PMID:26392463   PMID:27637147   PMID:28250012   PMID:29753717   PMID:32994318  


Genomics

Comparative Map Data
Trim38
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391323,962,483 - 23,975,721 (+)NCBIGRCm39mm39
GRCm39 Ensembl1323,953,896 - 23,975,511 (+)Ensembl
GRCm381323,778,500 - 23,791,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1323,769,913 - 23,791,528 (+)EnsemblGRCm38mm10GRCm38
MGSCv371323,874,441 - 23,883,364 (+)NCBIGRCm37mm9NCBIm37
MGSCv361323,790,037 - 23,798,960 (+)NCBImm8
Celera1324,014,284 - 24,023,174 (+)NCBICelera
Cytogenetic Map13A3.1NCBI
TRIM38
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl625,962,802 - 25,991,231 (+)EnsemblGRCh38hg38GRCh38
GRCh38625,962,723 - 25,991,231 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37625,963,030 - 25,991,459 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36626,071,050 - 26,093,337 (+)NCBINCBI36hg18NCBI36
Build 34626,071,049 - 26,093,329NCBI
Celera627,190,286 - 27,212,582 (+)NCBI
Cytogenetic Map6p22.2NCBI
HuRef625,905,972 - 25,930,614 (+)NCBIHuRef
CHM1_1625,965,160 - 25,989,826 (+)NCBICHM1_1
Trim38
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21741,351,857 - 41,365,021 (-)NCBI
Rnor_6.01743,600,006 - 43,607,879 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01745,454,492 - 45,462,066 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41748,533,590 - 48,541,164 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1740,983,646 - 40,991,519 (-)NCBICelera
Cytogenetic Map17p11NCBI
TRIM38
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1626,454,051 - 26,475,842 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl626,454,051 - 26,475,842 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0625,796,278 - 25,818,610 (+)NCBIMhudiblu_PPA_v0panPan3
TRIM38
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13523,894,521 - 23,939,392 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3523,926,287 - 23,939,466 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3523,805,035 - 23,818,264 (+)NCBI
ROS_Cfam_1.03524,010,055 - 24,054,777 (+)NCBI
UMICH_Zoey_3.13523,826,346 - 23,871,192 (+)NCBI
UNSW_CanFamBas_1.03523,876,839 - 23,913,812 (+)NCBI
UU_Cfam_GSD_1.03525,310,095 - 25,354,827 (+)NCBI
Trim38
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244049461,769,006 - 1,779,866 (-)NCBI
SpeTri2.0NW_0049366711,841,722 - 1,853,804 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TRIM38
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl720,682,652 - 20,704,192 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1720,682,536 - 20,694,340 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
TRIM38
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11746,269,498 - 46,292,050 (-)NCBI
ChlSab1.1 Ensembl1746,268,289 - 46,292,092 (-)Ensembl
Vero_WHO_p1.0NW_02366604425,899,176 - 25,922,157 (+)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301255Cd4ts6_mCD4 T cell subset 6 (mouse)Not determined13133994099Mouse
10449140Eosn2_meosinophil differential 2 (mouse)134672634046726Mouse
15039338Nmrs34_mNAFLD-associated magnetic resonance shift 34 (mouse)134672634046726Mouse
1301455Bmd3_mbone mineral density 3 (mouse)Not determined13329344237293650Mouse
10045624Heal24_mwound healing/regeneration (mouse)Not determined13329344237293650Mouse
10045625Heal23_mwound healing/regeneration 23 (mouse)Not determined13329344237293650Mouse
1301367Twq1_mtestis weight QTL 1 (mouse)Not determined13343134237431502Mouse
1301733Heal3_mwound healing/regeneration 3 (mouse)Not determined13349603037496173Mouse
26884393Humsd7_mhumerus midshaft diameter 7, 16 week (mouse)13390000075900000Mouse
1558898Hpi1_mhapatic PMN infiltration 1 (mouse)Not determined13436402652947604Mouse
10402494Igmsc1_mimmunoglobulin M secreting cells 1 (mouse)Not determined131699396044765084Mouse
1301984Pbd2_mpeak bone density 2 (mouse)Not determined131701492338763430Mouse
1301880Hypt_mhypertension (mouse)Not determined131797280951972941Mouse
13463469Gssq1_mglomerulosclerosis severity QTL 1 (mouse)131887692552877067Mouse
12880423V25Dq7_mvitamin D inactive form serum level QTL 7 (mouse)131940000053400000Mouse
1301015Sysbp2_msystolic blood pressure 2 (mouse)Not determined132029344259673791Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20293442112761890Mouse
1357591Tesq1_mtestis weight QTL 1 (mouse)Not determined132043134255572704Mouse
4142009Pregq3_mpregnancy QTL 3 (mouse)Not determined132043134272237070Mouse
10045618Heal17_mwound healing/regeneration 17 (mouse)Not determined132056296354563080Mouse
1558844Lith15_mlithogenic gene 15 (mouse)Not determined132176326255763430Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:118
Count of miRNA genes:107
Interacting mature miRNAs:108
Transcripts:ENSMUST00000074067
Prediction methods:Microtar, Miranda, Rnahybrid
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: ENSMUST00000074067   ⟹   ENSMUSP00000073709
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1323,782,541 - 23,791,528 (+)Ensembl
RefSeq Acc Id: ENSMUST00000223911   ⟹   ENSMUSP00000153540
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1323,782,541 - 23,791,528 (+)Ensembl
RefSeq Acc Id: ENSMUST00000226039   ⟹   ENSMUSP00000153240
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1323,769,913 - 23,791,528 (+)Ensembl
RefSeq Acc Id: NM_001029935   ⟹   NP_001025106
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391323,966,524 - 23,975,511 (+)NCBI
GRCm381323,782,541 - 23,791,528 (+)NCBI
MGSCv371323,874,441 - 23,883,364 (+)RGD
Celera1324,014,253 - 24,023,207 (+)NCBI
cM Map13 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006516637   ⟹   XP_006516700
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391323,962,483 - 23,975,721 (+)NCBI
GRCm381323,778,500 - 23,791,731 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011244303   ⟹   XP_011242605
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391323,963,014 - 23,975,721 (+)NCBI
GRCm381323,779,055 - 23,791,731 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001025106 (Get FASTA)   NCBI Sequence Viewer  
  XP_006516700 (Get FASTA)   NCBI Sequence Viewer  
  XP_011242605 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI50837 (Get FASTA)   NCBI Sequence Viewer  
  EDL32533 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001025106   ⟸   NM_001029935
- UniProtKB: Q5SZ99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006516700   ⟸   XM_006516637
- Peptide Label: isoform X1
- UniProtKB: Q5SZ99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011242605   ⟸   XM_011244303
- Peptide Label: isoform X1
- UniProtKB: Q5SZ99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000153540   ⟸   ENSMUST00000223911
RefSeq Acc Id: ENSMUSP00000073709   ⟸   ENSMUST00000074067
RefSeq Acc Id: ENSMUSP00000153240   ⟸   ENSMUST00000226039
Protein Domains
B box-type   B30.2/SPRY   RING-type


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2684869 AgrOrtholog
Ensembl Genes ENSMUSG00000064140 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000073709 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000153240 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUSP00000153540 UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000074067 ENTREZGENE, UniProtKB/TrEMBL
  ENSMUST00000223911 UniProtKB/TrEMBL
  ENSMUST00000226039 ENTREZGENE, 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
  SPRY/PRY_TRIM38 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
KEGG Report mmu:214158 UniProtKB/TrEMBL
MGD MGI:2684869 ENTREZGENE
NCBI Gene 214158 ENTREZGENE
Pfam PRY UniProtKB/TrEMBL
  SPRY UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
PhenoGen Trim38 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 BBOX UniProtKB/TrEMBL
  PRY UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
  SPRY UniProtKB/TrEMBL
Superfamily-SCOP ConA_like_lec_gl UniProtKB/TrEMBL
UniProt A0A286YDR5_MOUSE UniProtKB/TrEMBL
  B9EKD3_MOUSE UniProtKB/TrEMBL
  Q5SZ99 ENTREZGENE, UniProtKB/TrEMBL