Ube2d3 (ubiquitin-conjugating enzyme E2D 3) - Rat Genome Database

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Gene: Ube2d3 (ubiquitin-conjugating enzyme E2D 3) Rattus norvegicus
Analyze
Symbol: Ube2d3 (Ensembl: Ube2d2)
Name: ubiquitin-conjugating enzyme E2D 3 (Ensembl:ubiquitin-conjugating enzyme E2D 2)
RGD ID: 619912
Description: Enables ubiquitin-protein transferase activity. Involved in cellular response to cadmium ion; cellular response to mercury ion; and ubiquitin-dependent protein catabolic process. Predicted to be located in endosome membrane and plasma membrane. Predicted to be active in nucleus. Orthologous to human UBE2D3 (ubiquitin conjugating enzyme E2 D3); PARTICIPATES IN altered ubiquitin/proteasome degradation pathway; Alzheimer's disease pathway; ubiquitin/proteasome degradation pathway; INTERACTS WITH (+)-pilocarpine; 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: (E3-independent) E2 ubiquitin-conjugating enzyme D3; E2 ubiquitin-conjugating enzyme D3; E2(17)KB 3; PAPase; phosphoarginine phosphatase; ubiquitin carrier protein D3; ubiquitin-conjugating enzyme E2 D3; ubiquitin-conjugating enzyme E2(17)KB 3; ubiquitin-conjugating enzyme E2-17 kDa 3; ubiquitin-conjugating enzyme E2D 3 (homologous to yeast UBC4/5); ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast); ubiquitin-protein ligase D3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82226,543,194 - 226,571,001 (+)NCBIGRCr8
mRatBN7.22223,868,397 - 223,899,606 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2223,868,730 - 223,898,081 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2231,594,945 - 231,622,832 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02229,494,684 - 229,522,571 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02224,359,470 - 224,387,358 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02240,626,198 - 240,655,874 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2240,627,436 - 240,655,246 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02259,145,350 - 259,175,020 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42232,943,214 - 232,971,022 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12232,929,953 - 232,957,762 (+)NCBI
Celera2216,077,814 - 216,105,620 (+)NCBICelera
Cytogenetic Map2q43NCBI
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
(+)-pilocarpine  (EXP)
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2-methylcholine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-hydroxynon-2-enal  (ISO)
6-propyl-2-thiouracil  (EXP)
aconitine  (EXP)
acrolein  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
amiodarone  (ISO)
amitrole  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
Benzo[k]fluoranthene  (ISO)
beta-lapachone  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium atom  (EXP,ISO)
cadmium dichloride  (ISO)
cannabidiol  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
clofibrate  (ISO)
copper(II) sulfate  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
dibenzo[a,l]pyrene  (ISO)
Dibutyl phosphate  (ISO)
dimethylarsinic acid  (EXP)
dinophysistoxin 1  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
epoxiconazole  (ISO)
ethanol  (ISO)
fenthion  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
genistein  (EXP)
gentamycin  (EXP)
hypochlorous acid  (ISO)
ivermectin  (ISO)
levonorgestrel  (ISO)
methimazole  (EXP)
methylmercury chloride  (ISO)
N-acetyl-beta-D-glucosamine  (ISO)
N-acetyl-D-glucosamine  (ISO)
nefazodone  (EXP)
okadaic acid  (ISO)
oxidopamine  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
potassium chromate  (ISO)
resveratrol  (ISO)
rotenone  (EXP,ISO)
SB 431542  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
sulforaphane  (ISO)
tamoxifen  (ISO)
testosterone undecanoate  (ISO)
theophylline  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
undecane  (EXP)
valproic acid  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. Defective ubiquitination of cerebral proteins in Alzheimer's disease. Lopez Salon M, etal., J Neurosci Res 2000 Oct 15;62(2):302-10.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
7. GOA pipeline RGD automated data pipeline
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
10. Cadmium toxicity is caused by accumulation of p53 through the down-regulation of Ube2d family genes in vitro and in vivo. Tokumoto M, etal., J Toxicol Sci. 2011 Apr;36(2):191-200.
11. Inorganic arsenic induces apoptosis through downregulation of Ube2d genes and p53 accumulation in rat proximal tubular cells. Tokumoto M, etal., J Toxicol Sci. 2013;38(6):815-20.
12. Molecular cloning, expression and characterization of a ubiquitin conjugation enzyme (E2(17)kB) highly expressed in rat testis. Wing SS and Jain P, Biochem J 1995 Jan 1;305 ( Pt 1):125-32.
Additional References at PubMed
PMID:9990509   PMID:10230407   PMID:14765125   PMID:15489334   PMID:15601779   PMID:16522193   PMID:18056970   PMID:20017557   PMID:20061386   PMID:20347421   PMID:21068390   PMID:21532592  
PMID:21685362   PMID:23533145   PMID:24270810   PMID:34391873  


Genomics

Comparative Map Data
Ube2d3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82226,543,194 - 226,571,001 (+)NCBIGRCr8
mRatBN7.22223,868,397 - 223,899,606 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2223,868,730 - 223,898,081 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2231,594,945 - 231,622,832 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02229,494,684 - 229,522,571 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02224,359,470 - 224,387,358 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02240,626,198 - 240,655,874 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2240,627,436 - 240,655,246 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02259,145,350 - 259,175,020 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42232,943,214 - 232,971,022 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12232,929,953 - 232,957,762 (+)NCBI
Celera2216,077,814 - 216,105,620 (+)NCBICelera
Cytogenetic Map2q43NCBI
UBE2D3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384102,794,383 - 102,868,895 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4102,794,383 - 102,868,896 (-)EnsemblGRCh38hg38GRCh38
GRCh374103,715,540 - 103,790,052 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 364103,936,217 - 104,009,473 (-)NCBINCBI36Build 36hg18NCBI36
Build 344104,074,372 - 104,147,599NCBI
Celera4101,016,390 - 101,089,649 (-)NCBICelera
Cytogenetic Map4q24NCBI
HuRef499,451,682 - 99,526,231 (-)NCBIHuRef
CHM1_14103,692,018 - 103,766,521 (-)NCBICHM1_1
T2T-CHM13v2.04106,108,341 - 106,183,222 (-)NCBIT2T-CHM13v2.0
Ube2d3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393135,143,993 - 135,173,975 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3135,143,910 - 135,173,959 (+)EnsemblGRCm39 Ensembl
GRCm383135,438,232 - 135,468,214 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3135,438,149 - 135,468,198 (+)EnsemblGRCm38mm10GRCm38
MGSCv373135,101,723 - 135,130,142 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363135,376,146 - 135,404,565 (+)NCBIMGSCv36mm8
Celera3141,853,128 - 141,881,546 (+)NCBICelera
Cytogenetic Map3G3NCBI
cM Map362.56NCBI
Ube2d3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554965,697,276 - 5,727,003 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554965,694,471 - 5,727,003 (+)NCBIChiLan1.0ChiLan1.0
UBE2D3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23100,879,863 - 100,953,026 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14101,164,705 - 101,239,453 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0495,218,319 - 95,293,053 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14105,880,108 - 105,954,809 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4105,883,133 - 105,900,546 (-)Ensemblpanpan1.1panPan2
UBE2D3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13224,190,897 - 24,221,627 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3217,801,927 - 17,832,922 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03224,410,742 - 24,441,746 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3224,409,150 - 24,441,690 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13224,427,882 - 24,458,805 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03224,171,284 - 24,202,254 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03215,660,791 - 15,691,751 (+)NCBIUU_Cfam_GSD_1.0
Ube2d3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530117,212,410 - 17,244,603 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936520556,231 - 588,752 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936520555,878 - 588,052 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBE2D3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8118,203,289 - 118,232,029 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18118,218,224 - 118,229,002 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28127,420,968 - 127,431,762 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBE2D3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1750,895,052 - 50,927,726 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603729,406,295 - 29,439,054 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ube2d3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248305,213,464 - 5,240,809 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ube2d3
118 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:218
Count of miRNA genes:131
Interacting mature miRNAs:173
Transcripts:ENSRNOT00000066204
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
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2190613715226808892Rat
1598813Memor9Memory QTL 92.7exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)2199341726234244620Rat
8693697Alc36Alcohol consumption QTL 3620.592drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2217139753236660713Rat
1298075Scl17Serum cholesterol level QTL 173.4blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)2211744537249053267Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266118463226797303Rat
2298479Eau5Experimental allergic uveoretinitis QTL 50.0021uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)2202446871237938339Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)281754530227146641Rat
1300126Bp175Blood pressure QTL 1753.46arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2214226044247136170Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)218960362228801039Rat
7207484Bss108Bone structure and strength QTL 1085.3femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)2211744537249053267Rat
2313073Bmd75Bone mineral density QTL 754.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)2215377404237938339Rat
7411555Bw132Body weight QTL 1320.001body mass (VT:0001259)body weight gain (CMO:0000420)2223389739249053267Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2184165752229165752Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2189599258234599258Rat
7207482Bss107Bone structure and strength QTL 1077femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)2211744537249053267Rat
2317752Glom23Glomerulus QTL 233.6urine protein amount (VT:0005160)urine protein level (CMO:0000591)2193452645245889826Rat
1549836Bss2Bone structure and strength QTL 27.5femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)2211744537249053267Rat
2317885Alcrsp28Alcohol response QTL 282.10.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2212828222249053267Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2189599258226936289Rat
1331767Hrtrt12Heart rate QTL 123.373heart pumping trait (VT:2000009)heart rate (CMO:0000002)2218414747240841241Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2182171407227171407Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2182171407227171407Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2179946951224946951Rat
2293833Kiddil8Kidney dilation QTL 82.9kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2182171407227171407Rat
1598835Anxrr18Anxiety related response QTL 182.98body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)2200990457245990457Rat
7207490Bss111Bone structure and strength QTL 1116.4femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)2211744537249053267Rat
8693622Alc26Alcohol consumption QTL 262.40.667drinking behavior trait (VT:0001422)calculated ethanol drink intake rate (CMO:0001615)2221136523241305619Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2164073756227146641Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2182171407227171407Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2189599258234599258Rat
9587428Epfw6Epididymal fat weight QTL 67.470.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)2223389739249053267Rat
2293844Kiddil7Kidney dilation QTL 73.5kidney pelvis morphology trait (VT:0004194)hydronephrosis severity score (CMO:0001208)2219753301247136170Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2149559561249053267Rat
724534Uae6Urinary albumin excretion QTL 610urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)278665619249053267Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2179335906224335906Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2157142078226277316Rat
1359019Hrtrt19Heart rate QTL 192.9heart pumping trait (VT:2000009)heart rate (CMO:0000002)2219753301226277316Rat

Markers in Region
D2Got358  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22223,887,815 - 223,887,957 (+)MAPPERmRatBN7.2
Rnor_6.02240,645,597 - 240,645,740NCBIRnor6.0
Rnor_5.02259,164,749 - 259,164,890UniSTSRnor5.0
RGSC_v3.42232,961,375 - 232,961,516UniSTSRGSC3.4
Celera2216,095,974 - 216,096,115UniSTS
Cytogenetic Map2q43UniSTS
RH128490  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22223,897,045 - 223,897,265 (+)MAPPERmRatBN7.2
Rnor_6.02240,654,829 - 240,655,048NCBIRnor6.0
Rnor_5.02259,173,979 - 259,174,198UniSTSRnor5.0
RGSC_v3.42232,970,605 - 232,970,824UniSTSRGSC3.4
Celera2216,105,203 - 216,105,422UniSTS
Cytogenetic Map2q43UniSTS
BE116708  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22223,887,351 - 223,887,527 (+)MAPPERmRatBN7.2
Rnor_6.02240,645,133 - 240,645,308NCBIRnor6.0
Rnor_5.02259,164,285 - 259,164,460UniSTSRnor5.0
RGSC_v3.42232,960,911 - 232,961,086UniSTSRGSC3.4
Celera2216,095,510 - 216,095,685UniSTS
RH 3.4 Map21562.1UniSTS
Cytogenetic Map2q43UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000066204   ⟹   ENSRNOP00000060962
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2223,868,730 - 223,898,081 (+)Ensembl
Rnor_6.0 Ensembl2240,627,436 - 240,655,246 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000079694   ⟹   ENSRNOP00000069374
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2223,884,629 - 223,898,080 (+)Ensembl
Rnor_6.0 Ensembl2240,642,847 - 240,652,806 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000083181   ⟹   ENSRNOP00000074051
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2223,884,402 - 223,898,080 (+)Ensembl
Rnor_6.0 Ensembl2240,642,184 - 240,654,432 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000103636   ⟹   ENSRNOP00000080614
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl2223,869,296 - 223,898,080 (+)Ensembl
RefSeq Acc Id: NM_031237   ⟹   NP_112516
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82226,543,194 - 226,571,001 (+)NCBI
mRatBN7.22223,869,653 - 223,897,463 (+)NCBI
Rnor_6.02240,627,436 - 240,655,246 (+)NCBI
Rnor_5.02259,145,350 - 259,175,020 (+)NCBI
RGSC_v3.42232,943,214 - 232,971,022 (+)RGD
Celera2216,077,814 - 216,105,620 (+)RGD
Sequence:
RefSeq Acc Id: XM_006233335   ⟹   XP_006233397
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82226,543,350 - 226,570,246 (+)NCBI
mRatBN7.22223,868,397 - 223,899,606 (+)NCBI
Rnor_6.02240,626,211 - 240,655,874 (+)NCBI
Rnor_5.02259,145,350 - 259,175,020 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063282635   ⟹   XP_063138705
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82226,543,352 - 226,570,246 (+)NCBI
RefSeq Acc Id: NP_112516   ⟸   NM_031237
- UniProtKB: P61078 (UniProtKB/Swiss-Prot),   A6HVX6 (UniProtKB/TrEMBL),   A0A0G2K739 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006233397   ⟸   XM_006233335
- Peptide Label: isoform X1
- UniProtKB: A0A8I5ZTF1 (UniProtKB/TrEMBL),   A6HVY0 (UniProtKB/TrEMBL),   A0A0G2K739 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000069374   ⟸   ENSRNOT00000079694
Ensembl Acc Id: ENSRNOP00000060962   ⟸   ENSRNOT00000066204
Ensembl Acc Id: ENSRNOP00000074051   ⟸   ENSRNOT00000083181
Ensembl Acc Id: ENSRNOP00000080614   ⟸   ENSRNOT00000103636
RefSeq Acc Id: XP_063138705   ⟸   XM_063282635
- Peptide Label: isoform X2
Protein Domains
UBC core

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P61078-F1-model_v2 AlphaFold P61078 1-147 view protein structure

Transcriptome

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

Promoters
RGD ID:13691770
Promoter ID:EPDNEW_R2295
Type:initiation region
Name:Ube2d3_1
Description:ubiquitin-conjugating enzyme E2D 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_6.02240,627,377 - 240,627,437EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:619912 AgrOrtholog
BioCyc Gene G2FUF-51133 BioCyc
BioCyc Pathway PWY-7511 [protein ubiquitination] BioCyc
BioCyc Pathway Image PWY-7511 BioCyc
Ensembl Genes ENSRNOG00000013741 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055011277 UniProtKB/Swiss-Prot
  ENSRNOG00060021415 UniProtKB/Swiss-Prot
  ENSRNOG00065025147 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000066204.4 UniProtKB/Swiss-Prot
  ENSRNOT00000079694.2 UniProtKB/TrEMBL
  ENSRNOT00000083181.2 UniProtKB/TrEMBL
  ENSRNOT00000103636.1 UniProtKB/TrEMBL
  ENSRNOT00055019116 UniProtKB/Swiss-Prot
  ENSRNOT00060037241 UniProtKB/Swiss-Prot
  ENSRNOT00065043315 UniProtKB/Swiss-Prot
Gene3D-CATH 3.10.110.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7105617 IMAGE-MGC_LOAD
InterPro UBQ-conjugat_E2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBQ-conjugating_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBQ-conjugating_enzyme/RWD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:81920 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:91644 IMAGE-MGC_LOAD
NCBI Gene 81920 ENTREZGENE
PANTHER UBIQUITIN-CONJUGATING ENZYME E2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBIQUITIN-CONJUGATING ENZYME E2 D3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam UQ_con UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ube2d3 PhenoGen
PROSITE UBIQUITIN_CONJUGAT_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  UBIQUITIN_CONJUGAT_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013741 RatGTEx
  ENSRNOG00055011277 RatGTEx
  ENSRNOG00060021415 RatGTEx
  ENSRNOG00065025147 RatGTEx
SMART UBCc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54495 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JV72_RAT UniProtKB/TrEMBL
  A0A0G2K739 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZTF1 ENTREZGENE, UniProtKB/TrEMBL
  A6HVX6 ENTREZGENE, UniProtKB/TrEMBL
  A6HVY0 ENTREZGENE, UniProtKB/TrEMBL
  A6HVY1_RAT UniProtKB/TrEMBL
  P61078 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary P47986 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-01 Ube2d3  ubiquitin-conjugating enzyme E2D 3  Ube2d3  ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Ube2d3  ubiquitin-conjugating enzyme E2D 3 (UBC4/5 homolog, yeast)    ubiquitin-conjugating enzyme E2D 3 (homologous to yeast UBC4/5)  Name updated 1299863 APPROVED
2002-08-07 Ube2d3  ubiquitin-conjugating enzyme E2D 3 (homologous to yeast UBC4/5)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression highly expressed in rat testis 730002
gene_process may have a role in the proteolysis that occurs during spermatogenesis 730002