Ube2l3 (ubiquitin-conjugating enzyme E2L 3) - Rat Genome Database

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Gene: Ube2l3 (ubiquitin-conjugating enzyme E2L 3) Rattus norvegicus
Analyze
Symbol: Ube2l3
Name: ubiquitin-conjugating enzyme E2L 3
RGD ID: 1308361
Description: Predicted to enable several functions, including ubiquitin conjugating enzyme activity; ubiquitin protein ligase binding activity; and ubiquitin-protein transferase activator activity. Predicted to be involved in several processes, including cellular response to glucocorticoid stimulus; positive regulation of protein targeting to mitochondrion; and protein K11-linked ubiquitination. Predicted to act upstream of or within ubiquitin-dependent protein catabolic process. Located in presynapse. Orthologous to human UBE2L3 (ubiquitin conjugating enzyme E2 L3); PARTICIPATES IN mitochondrial autophagy pathway; Parkinson's disease pathway; ubiquitin/proteasome degradation pathway; INTERACTS WITH 1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC363836; UbcH7; UbcR7; ubiquitin-conjugating enzyme E2 L3
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
GRCr81197,300,584 - 97,343,084 (+)NCBIGRCr8
mRatBN7.21183,797,722 - 83,838,862 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1183,797,722 - 83,838,862 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1192,527,835 - 92,569,030 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01185,188,988 - 85,230,172 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01184,242,565 - 84,283,751 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01188,047,186 - 88,088,477 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,047,832 - 88,088,476 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,100,202 - 91,140,629 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,801,097 - 85,843,043 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11185,841,676 - 85,883,641 (+)NCBI
Celera1182,559,953 - 82,601,068 (+)NCBICelera
Cytogenetic Map11q23NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component
cytoplasm  (ISO)
nucleus  (ISO)
presynapse  (IDA)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. The three 'P's of mitophagy: PARKIN, PINK1, and post-translational modifications. Durcan TM and Fon EA, Genes Dev. 2015 May 15;29(10):989-99. doi: 10.1101/gad.262758.115.
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
5. Parkin localizes to the Lewy bodies of Parkinson disease and dementia with Lewy bodies. Schlossmacher MG, etal., Am J Pathol. 2002 May;160(5):1655-67.
6. Developmental changes in the expression of parkin and UbcR7, a parkin-interacting and ubiquitin-conjugating enzyme, in rat brain. Wang M, etal., J Neurochem. 2001 Jun;77(6):1561-8.
Additional References at PubMed
PMID:9990509   PMID:10501966   PMID:10888878   PMID:11278816   PMID:12477932   PMID:12628165   PMID:14765125   PMID:15367689   PMID:15632090   PMID:16246731   PMID:17003263   PMID:18946090  
PMID:20061386   PMID:21532592   PMID:22658674   PMID:22871113   PMID:23376485   PMID:23499007   PMID:24270810   PMID:24337465   PMID:24566975   PMID:25483588   PMID:28957379  


Genomics

Comparative Map Data
Ube2l3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81197,300,584 - 97,343,084 (+)NCBIGRCr8
mRatBN7.21183,797,722 - 83,838,862 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1183,797,722 - 83,838,862 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1192,527,835 - 92,569,030 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01185,188,988 - 85,230,172 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01184,242,565 - 84,283,751 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01188,047,186 - 88,088,477 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,047,832 - 88,088,476 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,100,202 - 91,140,629 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41185,801,097 - 85,843,043 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11185,841,676 - 85,883,641 (+)NCBI
Celera1182,559,953 - 82,601,068 (+)NCBICelera
Cytogenetic Map11q23NCBI
UBE2L3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382221,549,447 - 21,624,034 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2221,549,447 - 21,624,034 (+)EnsemblGRCh38hg38GRCh38
GRCh372221,903,736 - 21,978,323 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362220,251,957 - 20,308,323 (+)NCBINCBI36Build 36hg18NCBI36
Build 342220,246,510 - 20,302,877NCBI
Celera225,739,499 - 5,795,863 (+)NCBICelera
Cytogenetic Map22q11.21NCBI
HuRef224,879,945 - 4,936,197 (+)NCBIHuRef
CHM1_12221,904,101 - 21,978,521 (+)NCBICHM1_1
T2T-CHM13v2.02221,962,924 - 22,037,518 (+)NCBIT2T-CHM13v2.0
Ube2l3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391616,969,879 - 17,019,363 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1616,969,877 - 17,020,513 (-)EnsemblGRCm39 Ensembl
GRCm381617,152,015 - 17,201,512 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1617,152,013 - 17,202,649 (-)EnsemblGRCm38mm10GRCm38
MGSCv371617,152,108 - 17,201,585 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361617,065,578 - 17,115,055 (-)NCBIMGSCv36mm8
Celera1617,724,819 - 17,774,277 (-)NCBICelera
Cytogenetic Map16A3NCBI
cM Map1610.63NCBI
Ube2l3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,487,815 - 17,581,675 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,487,815 - 17,581,675 (-)NCBIChiLan1.0ChiLan1.0
UBE2L3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22331,112,684 - 31,169,247 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12233,661,486 - 33,717,975 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0223,690,100 - 3,746,665 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12220,174,546 - 20,229,928 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2220,174,546 - 20,229,928 (+)Ensemblpanpan1.1panPan2
UBE2L3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12630,835,222 - 30,899,842 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2630,823,209 - 30,898,324 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2630,792,988 - 30,857,171 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02632,240,509 - 32,305,707 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2632,228,421 - 32,306,279 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12630,289,976 - 30,355,037 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02629,914,008 - 29,978,785 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02631,004,051 - 31,068,673 (+)NCBIUU_Cfam_GSD_1.0
Ube2l3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118140,616,677 - 140,683,226 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366192,070,731 - 2,137,369 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366192,070,836 - 2,137,314 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBE2L3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11450,265,102 - 50,315,409 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,716,702 - 53,765,937 (-)NCBISscrofa10.2Sscrofa10.2susScr3
UBE2L3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1194,485,960 - 4,538,838 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660852,458,762 - 2,513,218 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ube2l3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247471,125,022 - 1,177,524 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247471,125,009 - 1,178,595 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ube2l3
126 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:712
Count of miRNA genes:283
Interacting mature miRNAs:341
Transcripts:ENSRNOT00000046159, ENSRNOT00000065995
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat

Markers in Region
RH134203  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,837,617 - 83,837,805 (+)MAPPERmRatBN7.2
Rnor_6.01188,087,233 - 88,087,420NCBIRnor6.0
Rnor_5.01191,139,386 - 91,139,573UniSTSRnor5.0
RGSC_v3.41185,841,800 - 85,841,987UniSTSRGSC3.4
Celera1182,599,824 - 82,600,011UniSTS
RH 3.4 Map11723.32UniSTS
Cytogenetic Map11q23UniSTS
RH139542  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,838,604 - 83,838,812 (+)MAPPERmRatBN7.2
Rnor_6.01188,088,220 - 88,088,427NCBIRnor6.0
Rnor_5.01191,140,373 - 91,140,580UniSTSRnor5.0
RGSC_v3.41185,842,787 - 85,842,994UniSTSRGSC3.4
Celera1182,600,811 - 82,601,018UniSTS
RH 3.4 Map11721.71UniSTS
RH 3.4 Map11718.5UniSTS
Cytogenetic Map11q23UniSTS
AI407788  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21183,838,000 - 83,838,225 (+)MAPPERmRatBN7.2
Rnor_6.01188,087,616 - 88,087,840NCBIRnor6.0
Rnor_5.01191,139,769 - 91,139,993UniSTSRnor5.0
RGSC_v3.41185,842,183 - 85,842,407UniSTSRGSC3.4
Celera1182,600,207 - 82,600,431UniSTS
RH 3.4 Map11722.11UniSTS
Cytogenetic Map11q23UniSTS


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 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000046159   ⟹   ENSRNOP00000050143
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1183,797,722 - 83,838,862 (+)Ensembl
Rnor_6.0 Ensembl1188,047,832 - 88,088,476 (+)Ensembl
RefSeq Acc Id: NM_001329136   ⟹   NP_001316065
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81197,301,945 - 97,343,084 (+)NCBI
mRatBN7.21183,797,722 - 83,838,862 (+)NCBI
Rnor_6.01188,047,186 - 88,088,477 (+)NCBI
Celera1182,559,953 - 82,601,068 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039088547   ⟹   XP_038944475
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81197,300,584 - 97,343,084 (+)NCBI
mRatBN7.21183,798,295 - 83,838,862 (+)NCBI
RefSeq Acc Id: XM_063270675   ⟹   XP_063126745
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81197,311,926 - 97,343,084 (+)NCBI
RefSeq Acc Id: XM_063270676   ⟹   XP_063126746
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81197,320,560 - 97,343,084 (+)NCBI
RefSeq Acc Id: XM_063270677   ⟹   XP_063126747
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81197,302,589 - 97,343,084 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001316065   ⟸   NM_001329136
- UniProtKB: B2RZA9 (UniProtKB/TrEMBL),   D3Z8W5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000050143   ⟸   ENSRNOT00000046159
RefSeq Acc Id: XP_038944475   ⟸   XM_039088547
- Peptide Label: isoform X2
- UniProtKB: B2RZA9 (UniProtKB/TrEMBL),   D3Z8W5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063126747   ⟸   XM_063270677
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063126745   ⟸   XM_063270675
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063126746   ⟸   XM_063270676
- Peptide Label: isoform X3
Protein Domains
UBC core

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z8W5-F1-model_v2 AlphaFold D3Z8W5 1-166 view protein structure

Transcriptome

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

Promoters
RGD ID:13698333
Promoter ID:EPDNEW_R8858
Type:multiple initiation site
Name:Ube2l3_1
Description:ubiquitin-conjugating enzyme E2L 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01188,047,851 - 88,047,911EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308361 AgrOrtholog
BioCyc Gene G2FUF-20580 BioCyc
BioCyc Pathway PWY-7511 [protein ubiquitination] BioCyc
BioCyc Pathway Image PWY-7511 BioCyc
Ensembl Genes ENSRNOG00000001862 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000046159 ENTREZGENE
  ENSRNOT00000046159.5 UniProtKB/TrEMBL
Gene3D-CATH 3.10.110.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7939287 IMAGE-MGC_LOAD
InterPro UBQ-conjugat_E2 UniProtKB/TrEMBL
  UBQ-conjugating_AS UniProtKB/TrEMBL
  UBQ-conjugating_enzyme/RWD UniProtKB/TrEMBL
KEGG Report rno:363836 UniProtKB/TrEMBL
MGC_CLONE MGC:189492 IMAGE-MGC_LOAD
NCBI Gene 363836 ENTREZGENE
PANTHER UBIQUITIN-CONJUGATING ENZYME UniProtKB/TrEMBL
  UBIQUITIN-CONJUGATING ENZYME E2 UniProtKB/TrEMBL
Pfam UQ_con UniProtKB/TrEMBL
PhenoGen Ube2l3 PhenoGen
PROSITE UBIQUITIN_CONJUGAT_1 UniProtKB/TrEMBL
  UBIQUITIN_CONJUGAT_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001862 RatGTEx
SMART UBCc UniProtKB/TrEMBL
Superfamily-SCOP SSF54495 UniProtKB/TrEMBL
UniProt B2RZA9 ENTREZGENE
  D3Z8W5 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary B2RZA9 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Ube2l3  ubiquitin-conjugating enzyme E2L 3   Ube2l3_predicted  ubiquitin-conjugating enzyme E2L 3 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ube2l3_predicted  ubiquitin-conjugating enzyme E2L 3 (predicted)      Symbol and Name status set to approved 70820 APPROVED