Trim30c (tripartite motif-containing 30C) - Rat Genome Database

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Gene: Trim30c (tripartite motif-containing 30C) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Trim30c
Name: tripartite motif-containing 30C
RGD ID: 1566132
Description: Predicted to enable protein homodimerization activity; protein kinase binding activity; and ubiquitin protein ligase activity. Predicted to be involved in several processes, including innate immune response; positive regulation of canonical NF-kappaB signal transduction; and regulation of viral entry into host cell. Predicted to be active in cytoplasm. Orthologous to human TRIM5 (tripartite motif containing 5).
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC102554102; LOC502360; RGD1566132; similar to Tripartite motif protein 30-like; tripartite motif-containing protein 30A; tripartite motif-containing protein 30A-like
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81168,174,528 - 168,200,343 (-)NCBIGRCr8
mRatBN7.21158,766,401 - 158,787,915 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1158,765,969 - 158,787,183 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01169,492,786 - 169,514,195 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1169,491,920 - 169,513,537 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01175,632,695 - 175,653,428 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41162,149,945 - 162,153,493 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1156,756,948 - 156,778,351 (-)NCBICelera
Cytogenetic Map1q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model



Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Trim30cRatinnate immune response involved_inIBAMGI:1338757 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatpositive regulation of canonical NF-kappaB signal transduction involved_inIBAPANTHER:PTN002515827 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatregulation of gene expression involved_inIBAMGI:1859396 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatregulation of protein localization involved_inIBAPANTHER:PTN002515827 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatregulation of viral entry into host cell involved_inIBAMGI:98178 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Trim30cRatcytoplasm is_active_inIBAMGI:106657 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Trim30cRatmetal ion binding enablesIEAInterPro:IPR0189571600115GO_REF:0000002InterProGO_REF:0000002
Trim30cRatmetal ion binding enablesIEAUniProtKB-KW:KW-04791600115GO_REF:0000043UniProtGO_REF:0000043
Trim30cRatprotein homodimerization activity enablesIBAPANTHER:PTN002515827 and UniProtKB:Q9C0351600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatprotein kinase binding enablesIBAPANTHER:PTN002515827 and UniProtKB:Q9C0351600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatubiquitin protein ligase activity enablesIBAMGI:2137355 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Trim30cRatzinc ion binding enablesIEAInterPro:IPR0003151600115GO_REF:0000002InterProGO_REF:0000002
Trim30cRatzinc ion binding enablesIEAUniProtKB-KW:KW-08631600115GO_REF:0000043UniProtGO_REF:0000043


#
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
PMID:15632090  



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Variants in Trim30c
302 total Variants

Predicted Target Of
Summary Value
Count of predictions:8
Count of miRNA genes:8
Interacting mature miRNAs:8
Transcripts:ENSRNOT00000030827
Prediction methods: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.


1 to 10 of 78 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383668Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat

1 to 10 of 78 rows



alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000078058   ⟹   ENSRNOP00000070617
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1158,765,969 - 158,787,183 (-)Ensembl
Rnor_6.0 Ensembl1169,491,920 - 169,513,537 (-)Ensembl
RefSeq Acc Id: XM_006229915   ⟹   XP_006229977
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81168,174,528 - 168,200,343 (-)NCBI
mRatBN7.21158,766,401 - 158,787,915 (-)NCBI
Rnor_6.01169,492,786 - 169,514,195 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005499358
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81168,179,546 - 168,200,343 (-)NCBI
mRatBN7.21158,767,140 - 158,787,915 (-)NCBI
Protein RefSeqs XP_006229977 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM18079 (Get FASTA)   NCBI Sequence Viewer  
  EDM18080 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000070617
  ENSRNOP00000070617.1
RefSeq Acc Id: XP_006229977   ⟸   XM_006229915
- UniProtKB: A0A0G2JYE1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000070617   ⟸   ENSRNOT00000078058
B box-type   B30.2/SPRY   RING-type

Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JYE1-F1-model_v2 AlphaFold A0A0G2JYE1 1-514 view protein structure


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



1 to 38 of 38 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-58092 BioCyc
Ensembl Genes ENSRNOG00000031202 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000078058 ENTREZGENE
  ENSRNOT00000078058.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.920 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
InterPro B30.2/SPRY UniProtKB/TrEMBL
  B30.2/SPRY_sf UniProtKB/TrEMBL
  Butyrophylin UniProtKB/TrEMBL
  ConA-like_dom UniProtKB/TrEMBL
  SPRY_dom UniProtKB/TrEMBL
  TRIM/RBCC UniProtKB/TrEMBL
  Znf_B-box UniProtKB/TrEMBL
  Znf_C3HC4_RING-type UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_RING_CS UniProtKB/TrEMBL
KEGG Report rno:102554102 UniProtKB/TrEMBL
NCBI Gene Trim30c ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE TRIM UniProtKB/TrEMBL
Pfam SPRY UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
  zf-C3HC4 UniProtKB/TrEMBL
PhenoGen Trim30c PhenoGen
PRINTS BUTYPHLNCDUF UniProtKB/TrEMBL
PROSITE B302_SPRY UniProtKB/TrEMBL
  ZF_BBOX UniProtKB/TrEMBL
  ZF_RING_1 UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000031202 RatGTEx
SMART BBOX UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
  SPRY UniProtKB/TrEMBL
Superfamily-SCOP B-box zinc-binding domain UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
  SSF49899 UniProtKB/TrEMBL
UniProt A0A0G2JYE1 ENTREZGENE, UniProtKB/TrEMBL
1 to 38 of 38 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-24 Trim30c  tripartite motif-containing 30C  LOC102554102  tripartite motif-containing protein 30A-like  Data merged from RGD:7557318 737654 APPROVED
2015-11-24 Trim30c  tripartite motif-containing 30C  Trim30c  tripartite motif-containing 30C  Type changed (type changed from [null] to [protein-coding]) 629549 APPROVED
2013-12-17 LOC102554102  tripartite motif-containing protein 30A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2011-05-27 Trim30c  tripartite motif-containing 30C  RGD1566132  similar to Tripartite motif protein 30-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1566132  similar to Tripartite motif protein 30-like   RGD1566132_predicted  similar to Tripartite motif protein 30-like (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1566132_predicted  similar to Tripartite motif protein 30-like (predicted)  LOC502360  similar to Tripartite motif protein 30-like  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502360  similar to Tripartite motif protein 30-like      Symbol and Name status set to provisional 70820 PROVISIONAL