Trim80 (tripartite motif protein 80) - Rat Genome Database

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Gene: Trim80 (tripartite motif protein 80) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Trim80
Name: tripartite motif protein 80
RGD ID: 1311352
Description: Predicted to enable zinc ion binding activity. Predicted to be involved in innate immune response; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: E3 ubiquitin/ISG15 ligase TRIM25; gene overexpressed in astrocytoma; LOC303683; Trim47; Trim47_predicted; Trim47l; tripartite motif protein 47; tripartite motif protein 47 (predicted); tripartite motif protein 47-like
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810101,181,797 - 101,190,122 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl10101,181,353 - 101,190,122 (+)EnsemblGRCr8
mRatBN7.210100,682,826 - 100,691,152 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10100,682,830 - 100,691,151 (+)EnsemblmRatBN7.2
Rnor_6.010103,984,644 - 104,004,060 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10103,992,309 - 104,004,059 (+)Ensemblrn6Rnor6.0
Rnor_5.010104,275,379 - 104,293,092 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.410105,519,570 - 105,527,580 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1099,250,122 - 99,266,055 (+)NCBICelera
RGSC_v3.110106,225,825 - 106,230,222 (-)NCBI
Cytogenetic Map10q32.1NCBI
JBrowse:




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

Biological Process

Cellular Component
cytoplasm  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
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:12477932  


Genomics

Variants

.
Variants in Trim80
39 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:68
Count of miRNA genes:63
Interacting mature miRNAs:67
Transcripts:ENSRNOT00000065292
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354641Bvd2Brain ventricular dilatation QTL 26.360.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)1093723381107556066Rat
8657410Bp374Blood pressure QTL 374heart left ventricle size trait (VT:0002753)heart left ventricle end-diastolic diameter (CMO:0000982)1067476608107713808Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063719161107713808Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042546145107713808Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1058073360103073360Rat
12903252Cm113Cardiac mass QTL 1130.047heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1064939013107713808Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1076951790107713808Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)1079272424102982300Rat
70168Eae12Experimental allergic encephalomyelitis QTL 120.0009nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)1073599825107713808Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1054296227107713808Rat
12903269Am15Aortic mass QTL 150.042aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
12903266Cm114Cardiac mass QTL 1140.02heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)1066817119107713808Rat
1578672Bmd16Bone mineral density QTL 166.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)1097202388107556066Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062556066107556066Rat
12880372Am12Aortic mass QTL 120.003aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)1066817119107713808Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062556066107556066Rat
12880375Kidm66Kidney mass QTL 660.009kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1087807758107713808Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
12880370Cm105Cardiac mass QTL 1050.008heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat
12880371Cm106Cardiac mass QTL 1060.007heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)1066817119107713808Rat
1300137Bp186Blood pressure QTL 1863.57arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1091127270107556066Rat
11565453Kidm58Kidney mass QTL 580.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)1066817119107713808Rat
1578663Bss18Bone structure and strength QTL 183.6femur width (VT:1000666)femoral neck width (CMO:0001695)1097202388107556066Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1065390777107713808Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1081012077101828297Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1052269185107713808Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068920187107713808Rat
1358915Stresp7Stress response QTL 73.52blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)1065307813107713808Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1089039175107713808Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1061843496106843496Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070698731107713808Rat
1576313Pia25Pristane induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1096620293107713808Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
1576307Cia28Collagen induced arthritis QTL 28joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1096620293107713808Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040535708107713808Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1066108888107555881Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1072724423107713808Rat
631537Oia4Oil induced arthritis QTL 4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1076128947107713808Rat
634354Rends3Renal damage susceptibility QTL 30.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)1061997479106997479Rat
61436Cia5Collagen induced arthritis QTL 54.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1091727883107713808Rat
2301405Cm69Cardiac mass QTL 690.031heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)1066817119107713808Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
10 7 18 43 76 73 53 20 53 5 178 59 2 31 50 64 20

Sequence


Ensembl Acc Id: ENSRNOT00000065292   ⟹   ENSRNOP00000060665
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl10101,181,353 - 101,190,122 (+)Ensembl
mRatBN7.2 Ensembl10100,682,830 - 100,691,151 (+)Ensembl
Rnor_6.0 Ensembl10103,992,309 - 104,004,059 (+)Ensembl
RefSeq Acc Id: NM_001408610   ⟹   NP_001395539
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810101,181,844 - 101,190,122 (+)NCBI
mRatBN7.210100,682,873 - 100,691,152 (+)NCBI
RefSeq Acc Id: XM_039087797   ⟹   XP_038943725
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810101,181,797 - 101,190,122 (+)NCBI
mRatBN7.210100,682,826 - 100,691,152 (+)NCBI
RefSeq Acc Id: XM_039087798   ⟹   XP_038943726
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr810101,181,797 - 101,190,122 (+)NCBI
mRatBN7.210100,682,826 - 100,691,152 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001395539 (Get FASTA)   NCBI Sequence Viewer  
  XP_038943725 (Get FASTA)   NCBI Sequence Viewer  
  XP_038943726 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH91694 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000060665
  ENSRNOP00000060665.2
Ensembl Acc Id: ENSRNOP00000060665   ⟸   ENSRNOT00000065292
RefSeq Acc Id: XP_038943725   ⟸   XM_039087797
- Peptide Label: isoform X1
- UniProtKB: F1LMT9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038943726   ⟸   XM_039087798
- Peptide Label: isoform X2
- UniProtKB: F1LMT9 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001395539   ⟸   NM_001408610
- UniProtKB: Q5BIZ7 (UniProtKB/TrEMBL)
Protein Domains
B box-type   B30.2/SPRY   RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LMT9-F1-model_v2 AlphaFold F1LMT9 1-642 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:1311352 AgrOrtholog
BioCyc Gene G2FUF-22678 BioCyc
Ensembl Genes ENSRNOG00000028812 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000065292 ENTREZGENE
  ENSRNOT00000065292.5 UniProtKB/TrEMBL
Gene3D-CATH 2.60.120.920 UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/TrEMBL
  4.10.830.40 UniProtKB/TrEMBL
  Classic Zinc Finger UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7134879 IMAGE-MGC_LOAD
InterPro B30.2/SPRY_sf UniProtKB/TrEMBL
  B302/SPRY UniProtKB/TrEMBL
  Butyrophylin UniProtKB/TrEMBL
  ConA-like_dom UniProtKB/TrEMBL
  E3_ubiq-ligase_TRIM/RNF 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
MGC_CLONE MGC:105903 IMAGE-MGC_LOAD
NCBI Gene Trim80 ENTREZGENE
PANTHER B-BOX DOMAIN CONTAINING UniProtKB/TrEMBL
  TRIPARTITE MOTIF-CONTAINING 80 UniProtKB/TrEMBL
Pfam SPRY UniProtKB/TrEMBL
  TRIM_CC UniProtKB/TrEMBL
  zf-B_box UniProtKB/TrEMBL
  zf-C3HC4_4 UniProtKB/TrEMBL
PhenoGen Trim80 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 ENSRNOG00000028812 RatGTEx
SMART BBOX UniProtKB/TrEMBL
  RING UniProtKB/TrEMBL
  SPRY UniProtKB/TrEMBL
Superfamily-SCOP B-box zinc-binding domain UniProtKB/TrEMBL
  ConA_like_lec_gl UniProtKB/TrEMBL
  RING/U-box UniProtKB/TrEMBL
UniProt F1LMT9 ENTREZGENE, UniProtKB/TrEMBL
  Q5BIZ7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-01-19 Trim80  tripartite motif protein 80  Trim47l  tripartite motif protein 47-like  Name and Symbol changed 629549 APPROVED
2008-05-19 Trim47l  tripartite motif protein 47-like  Trim47_predicted  tripartite motif protein 47 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Trim47_predicted  tripartite motif protein 47 (predicted)      Symbol and Name status set to approved 70820 APPROVED