Ube2d4l1 (ubiquitin-conjugating enzyme E2D 4 like 1) - Rat Genome Database

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Gene: Ube2d4l1 (ubiquitin-conjugating enzyme E2D 4 like 1) Rattus norvegicus
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Symbol: Ube2d4l1
Name: ubiquitin-conjugating enzyme E2D 4 like 1
RGD ID: 2323338
Description: Predicted to enable ATP binding activity and ubiquitin-protein transferase activity. Orthologous to human UBE2DNL (ubiquitin conjugating enzyme E2 D N-terminal like (pseudogene)); INTERACTS WITH 3-isobutyl-1-methyl-7H-xanthine (ortholog); benzo[a]pyrene (ortholog); bisphenol F (ortholog).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100359803; ubiquitin-conjugating enzyme E2 D2-like; ubiquitin-conjugating enzyme E2D 3-like
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X81,470,592 - 81,471,523 (+)NCBIGRCr8
mRatBN7.2X77,278,354 - 77,279,285 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX77,278,343 - 77,279,293 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X83,569,934 - 83,570,924 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X83,535,823 - 83,536,735 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X100,805,532 - 100,807,116 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX78,581,533 - 78,582,523 (+)NCBICelera
Cytogenetic MapXq31NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Biological Process

Cellular Component
nucleus  (IEA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Ube2d4l1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X81,470,592 - 81,471,523 (+)NCBIGRCr8
mRatBN7.2X77,278,354 - 77,279,285 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX77,278,343 - 77,279,293 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X83,569,934 - 83,570,924 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.0X83,535,823 - 83,536,735 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X100,805,532 - 100,807,116 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX78,581,533 - 78,582,523 (+)NCBICelera
Cytogenetic MapXq31NCBI
UBE2DNL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X84,934,151 - 84,934,890 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX84,934,113 - 84,934,895 (+)EnsemblGRCh38hg38GRCh38
GRCh37X84,189,157 - 84,189,896 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X84,075,818 - 84,076,429 (+)NCBINCBI36Build 36hg18NCBI36
CeleraX84,428,607 - 84,429,346 (+)NCBICelera
Cytogenetic MapXq21.1NCBI
HuRefX77,763,448 - 77,764,187 (+)NCBIHuRef
CHM1_1X84,083,185 - 84,083,924 (+)NCBICHM1_1
T2T-CHM13v2.0X83,362,619 - 83,363,358 (+)NCBIT2T-CHM13v2.0

Variants

.
Variants in Ube2d4l1
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:92
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000045603
Prediction methods:Microtar, Miranda, Pita, 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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000118875   ⟹   ENSRNOP00000094887
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX77,278,343 - 77,279,293 (+)Ensembl
RefSeq Acc Id: NM_001408906   ⟹   NP_001395835
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X81,470,592 - 81,471,523 (+)NCBI
mRatBN7.2X77,278,354 - 77,279,285 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001395835 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000094887
  ENSRNOP00000094887.1
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000094887   ⟸   ENSRNOT00000118875
RefSeq Acc Id: NP_001395835   ⟸   NM_001408906
- UniProtKB: A0A8I6GLC9 (UniProtKB/TrEMBL)
Protein Domains
UBC core

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:2323338 AgrOrtholog
BioCyc Gene G2FUF-1836 BioCyc
Ensembl Genes ENSRNOG00000065297 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000118875 ENTREZGENE
  ENSRNOT00000118875.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.110.10 UniProtKB/TrEMBL
InterPro UBQ-conjugat_E2 UniProtKB/TrEMBL
  UBQ-conjugating_AS UniProtKB/TrEMBL
  UBQ-conjugating_enzyme/RWD UniProtKB/TrEMBL
NCBI Gene 100359803 ENTREZGENE
PANTHER UBIQUITIN-CONJUGATING ENZYME E2 UniProtKB/TrEMBL
  UBIQUITIN-CONJUGATING ENZYME E2D 4-LIKE 1 UniProtKB/TrEMBL
Pfam UQ_con UniProtKB/TrEMBL
PhenoGen Ube2d4l1 PhenoGen
PROSITE UBC_1 UniProtKB/TrEMBL
  UBC_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000065297 RatGTEx
SMART UBCc UniProtKB/TrEMBL
Superfamily-SCOP SSF54495 UniProtKB/TrEMBL
UniProt A0A8I6GLC9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-07-26 Ube2d4l1  ubiquitin-conjugating enzyme E2D 4 like 1  LOC100359803  ubiquitin-conjugating enzyme E2D 3-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100359803  ubiquitin-conjugating enzyme E2D 3-like      Symbol and Name status set to provisional 70820 PROVISIONAL