UBE3D (ubiquitin protein ligase E3D) - Rat Genome Database

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Gene: UBE3D (ubiquitin protein ligase E3D) Sus scrofa
Analyze
Symbol: UBE3D
Name: ubiquitin protein ligase E3D
RGD ID: 14279605
Description: ENCODES a protein that exhibits cyclin binding (inferred); ubiquitin conjugating enzyme binding (inferred); ubiquitin protein ligase activity (inferred); INVOLVED IN proteasome-mediated ubiquitin-dependent protein catabolic process (inferred); protein autoubiquitination (inferred); protein monoubiquitination (inferred); ASSOCIATED WITH genetic disease (ortholog); immunodeficiency 23 (ortholog); FOUND IN cytosol (inferred); nucleus (inferred); ubiquitin ligase complex (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: E3 ubiquitin-protein ligase E3D
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl183,140,635 - 83,295,785 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1183,140,479 - 83,295,865 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2193,417,743 - 93,474,534 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:30032202  


Genomics

Comparative Map Data
UBE3D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl183,140,635 - 83,295,785 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1183,140,479 - 83,295,865 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2193,417,743 - 93,474,534 (+)NCBISscrofa10.2Sscrofa10.2susScr3
UBE3D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38682,880,802 - 83,065,841 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl682,892,390 - 83,065,841 (-)EnsemblGRCh38hg38GRCh38
GRCh37683,602,109 - 83,775,560 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36683,658,905 - 83,832,264 (-)NCBINCBI36Build 36hg18NCBI36
Celera684,035,429 - 84,208,843 (-)NCBICelera
Cytogenetic Map6q14.1NCBI
HuRef680,830,086 - 81,003,588 (-)NCBIHuRef
CHM1_1683,699,816 - 83,873,224 (-)NCBICHM1_1
T2T-CHM13v2.0684,098,732 - 84,288,846 (-)NCBIT2T-CHM13v2.0
Ube3d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39986,189,364 - 86,347,003 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl986,189,359 - 86,347,003 (-)EnsemblGRCm39 Ensembl
GRCm38986,307,234 - 86,464,976 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl986,307,306 - 86,464,950 (-)EnsemblGRCm38mm10GRCm38
MGSCv37986,200,841 - 86,358,523 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36986,103,952 - 86,261,668 (-)NCBIMGSCv36mm8
Celera983,374,429 - 83,536,852 (-)NCBICelera
Cytogenetic Map9E3.1NCBI
cM Map946.58NCBI
Ube3d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8896,125,609 - 96,293,122 (-)NCBIGRCr8
mRatBN7.2887,245,503 - 87,413,104 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl887,245,589 - 87,413,057 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx892,927,512 - 93,094,414 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0891,126,712 - 91,293,614 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0888,960,141 - 89,134,732 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0893,948,689 - 94,120,477 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl893,948,767 - 94,120,458 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0893,463,000 - 93,633,611 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4891,537,389 - 91,704,052 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1891,675,636 - 91,726,778 (-)NCBI
Celera886,850,461 - 87,016,589 (-)NCBICelera
Cytogenetic Map8q31NCBI
Ube3d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541110,642,047 - 10,797,612 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541110,642,102 - 10,797,612 (-)NCBIChiLan1.0ChiLan1.0
UBE3D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25102,692,439 - 103,166,887 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16100,886,340 - 101,061,115 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0680,729,751 - 80,962,322 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1684,062,079 - 84,236,826 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl684,062,079 - 84,236,860 (-)Ensemblpanpan1.1panPan2
UBE3D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11243,264,956 - 43,475,583 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1243,282,372 - 43,476,086 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1243,078,353 - 43,288,980 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01244,032,015 - 44,241,623 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1243,994,228 - 44,241,887 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11243,372,224 - 43,581,804 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01243,320,940 - 43,530,526 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01243,481,894 - 43,691,291 (-)NCBIUU_Cfam_GSD_1.0
Ube3d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494678,607,940 - 78,752,364 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365107,718,535 - 7,862,998 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365107,718,552 - 7,862,946 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
UBE3D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1137,558,463 - 7,737,630 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl137,558,321 - 7,737,485 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040183,768,030 - 183,941,569 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ube3d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479911,523,473 - 11,703,079 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462479911,523,477 - 11,702,781 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in UBE3D
3275 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 9 4 3 5 2 22 2 3 3
Below cutoff 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000025129   ⟹   ENSSSCP00000023556
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl183,140,635 - 83,295,785 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000032416   ⟹   ENSSSCP00000026111
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl183,140,751 - 83,184,914 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000059955   ⟹   ENSSSCP00000049510
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl183,140,474 - 83,366,841 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000078410   ⟹   ENSSSCP00000063663
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl183,140,748 - 83,267,775 (+)Ensembl
RefSeq Acc Id: XM_021091912   ⟹   XP_020947571
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1183,140,479 - 83,295,865 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021091918   ⟹   XP_020947577
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1183,140,479 - 83,295,257 (+)NCBI
Sequence:
RefSeq Acc Id: XM_021091928   ⟹   XP_020947587
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1183,140,479 - 83,186,049 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020947571   ⟸   XM_021091912
- Peptide Label: isoform X1
- UniProtKB: A0A4X1V4P6 (UniProtKB/TrEMBL),   I3LHK9 (UniProtKB/TrEMBL),   A0A481AQU7 (UniProtKB/TrEMBL),   A0A8D0T7K0 (UniProtKB/TrEMBL),   A0A8D0IRI6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020947577   ⟸   XM_021091918
- Peptide Label: isoform X2
- UniProtKB: A0A8D0MHS7 (UniProtKB/TrEMBL),   A0A8D0T7K0 (UniProtKB/TrEMBL),   A0A8D0IRI6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020947587   ⟸   XM_021091928
- Peptide Label: isoform X3
- UniProtKB: A0A4X1V0E7 (UniProtKB/TrEMBL),   I3LPT4 (UniProtKB/TrEMBL),   A0A8D0IJT7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000063663   ⟸   ENSSSCT00000078410
RefSeq Acc Id: ENSSSCP00000023556   ⟸   ENSSSCT00000025129
RefSeq Acc Id: ENSSSCP00000049510   ⟸   ENSSSCT00000059955
RefSeq Acc Id: ENSSSCP00000026111   ⟸   ENSSSCT00000032416


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000026346 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005015492 UniProtKB/TrEMBL
  ENSSSCG00015006008 UniProtKB/TrEMBL
  ENSSSCG00025069802 UniProtKB/TrEMBL
  ENSSSCG00030016224 UniProtKB/TrEMBL
  ENSSSCG00035068800 UniProtKB/TrEMBL
  ENSSSCG00040066764 UniProtKB/TrEMBL
  ENSSSCG00045008950 UniProtKB/TrEMBL
  ENSSSCG00050014823 UniProtKB/TrEMBL
  ENSSSCG00055016555 UniProtKB/TrEMBL
  ENSSSCG00060066612 UniProtKB/TrEMBL
  ENSSSCG00065049211 UniProtKB/TrEMBL
  ENSSSCG00070021603 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000025129 ENTREZGENE
  ENSSSCT00000025129.4 UniProtKB/TrEMBL
  ENSSSCT00000032416 ENTREZGENE
  ENSSSCT00000032416.4 UniProtKB/TrEMBL
  ENSSSCT00005024186.1 UniProtKB/TrEMBL
  ENSSSCT00005024212.1 UniProtKB/TrEMBL
  ENSSSCT00015007986.1 UniProtKB/TrEMBL
  ENSSSCT00015007998.1 UniProtKB/TrEMBL
  ENSSSCT00015008004.1 UniProtKB/TrEMBL
  ENSSSCT00025095868.1 UniProtKB/TrEMBL
  ENSSSCT00025095972.1 UniProtKB/TrEMBL
  ENSSSCT00030022473.1 UniProtKB/TrEMBL
  ENSSSCT00030022481.1 UniProtKB/TrEMBL
  ENSSSCT00035092872.1 UniProtKB/TrEMBL
  ENSSSCT00035092874.1 UniProtKB/TrEMBL
  ENSSSCT00040091226.1 UniProtKB/TrEMBL
  ENSSSCT00040091306.1 UniProtKB/TrEMBL
  ENSSSCT00045015146.1 UniProtKB/TrEMBL
  ENSSSCT00045015189.1 UniProtKB/TrEMBL
  ENSSSCT00050020045.1 UniProtKB/TrEMBL
  ENSSSCT00050020057.1 UniProtKB/TrEMBL
  ENSSSCT00050020063.1 UniProtKB/TrEMBL
  ENSSSCT00055032664.1 UniProtKB/TrEMBL
  ENSSSCT00055032717.1 UniProtKB/TrEMBL
  ENSSSCT00060090916.1 UniProtKB/TrEMBL
  ENSSSCT00060090929.1 UniProtKB/TrEMBL
  ENSSSCT00065067375.1 UniProtKB/TrEMBL
  ENSSSCT00065067378.1 UniProtKB/TrEMBL
  ENSSSCT00070042913.1 UniProtKB/TrEMBL
  ENSSSCT00070042921.1 UniProtKB/TrEMBL
  ENSSSCT00070042930.1 UniProtKB/TrEMBL
InterPro UBQ-conj_enz_E2-bd_prot UniProtKB/TrEMBL
NCBI Gene UBE3D ENTREZGENE
PANTHER E3 UBIQUITIN-PROTEIN LIGASE E3D UniProtKB/TrEMBL
  PTHR31531 UniProtKB/TrEMBL
Pfam HECT_2 UniProtKB/TrEMBL
UniProt A0A481AQU7 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1V0E7 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1V4P6 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1V5N0_PIG UniProtKB/TrEMBL
  A0A8D0IJT7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0IRI6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0MHS7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0T7K0 ENTREZGENE, UniProtKB/TrEMBL
  I3LHK9 ENTREZGENE
  I3LPT4 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary I3LHK9 UniProtKB/TrEMBL
VGNC ID VGNC:94655 ENTREZGENE