 Gene Ontology Annotations | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Cellular Component
Molecular Function
Molecular Pathway Annotations |
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Cellular Component
Molecular Function
Molecular Pathway AnnotationsGene-Chemical Interaction Annotations
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Gene Ontology AnnotationsBiological Process
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Cellular Component
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Molecular Function
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Molecular Pathway AnnotationsReferences - curated| 1. | Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27. |
| 2. | Lopez Salon M, etal., J Neurosci Res 2000 Oct 15;62(2):302-10. |
| 3. | MGD data from the GO Consortium |
| 4. | NCBI rat LocusLink and RefSeq merged data July 26, 2002 |
| 5. | Pipeline to import KEGG annotations from KEGG into RGD |
| 6. | Pipeline to import Pathway Interaction Database annotations from NCI into RGD |
| 7. | RGD automated data pipeline |
| 8. | RGD automated import pipeline for gene-chemical interactions |
| 9. | Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11. |
| 10. | Tokumoto M, etal., J Toxicol Sci. 2011 Apr;36(2):191-200. |
| 11. | Tokumoto M, etal., J Toxicol Sci. 2013;38(6):815-20. |
| 12. | Wing SS and Jain P, Biochem J 1995 Jan 1;305 ( Pt 1):125-32. |
References - uncurated| PubMed | 9990509 10230407 14765125 15489334 15601779 16522193 18056970 20017557 20061386 20347421 21068390 21532592 21685362 23533145 24270810 |
Genomics
Comparative Map Data| Ube2d3 (Rattus norvegicus - Norway rat) |
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| UBE2D3 (Homo sapiens - human) |
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| Ube2d3 (Mus musculus - house mouse) |
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| Ube2d3 (Chinchilla lanigera - long-tailed chinchilla) |
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| UBE2D3 (Pan paniscus - bonobo/pygmy chimpanzee) |
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| UBE2D3 (Canis lupus familiaris - dog) |
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| Ube2d3 (Ictidomys tridecemlineatus - thirteen-lined ground squirrel) |
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| UBE2D3 (Sus scrofa - pig) |
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| UBE2D3 (Chlorocebus sabaeus - African green monkey) |
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| Ube2d3 (Heterocephalus glaber - naked mole-rat) |
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Position Markers| D2Got358 |
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| RH128490 |
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| BE116708 |
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QTLs in Region (Rnor_6.0)| The following QTLs overlap with this region. |  | Full Report | | CSV | | TAB | | Printer | | Gviewer |
miRNA Target Status
Predicted Target Of
| 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. |
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Expression
RNA-SEQ ExpressionHigh: > 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 |
View RNA-SEQ Expression Data
Sequence
Nucleotide Sequences| RefSeq Transcripts | NM_031237 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| XM_006233333 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006233334 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006233335 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006233336 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006233337 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| XM_006233338 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| GenBank Nucleotide | AAHX01010366 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
| AB006852 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| AC120718 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| AY724500 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| BC072696 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| CH473952 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ215509 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ226278 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| FQ233355 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles | |
| U13175 | (Get FASTA) | NCBI Sequence Viewer | Search GEO for Microarray Profiles |
Reference Sequences
| RefSeq Acc Id: | ENSRNOT00000066204 ⟹ ENSRNOP00000060962 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000079694 ⟹ ENSRNOP00000069374 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | ENSRNOT00000083181 ⟹ ENSRNOP00000074051 | ||||||||
| RefSeq Status: | |||||||||
| Type: | CODING | ||||||||
| Position: |
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| RefSeq Acc Id: | NM_031237 ⟹ NP_112516 | ||||||||||||||||||||
| RefSeq Status: | PROVISIONAL | ||||||||||||||||||||
| Type: | CODING | ||||||||||||||||||||
| Position: |
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| Sequence: |
CTCTGGGCGAAGCGCGGATATAAGTAGCTGGTGGCTCTGCCACCCCACCCTGCCCGGATCGCGAhide sequence |
| RefSeq Acc Id: | XM_006233333 ⟹ XP_006233395 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
TGGCAGCTGGCAGTAGTTCCGTCAGAGCGGACATCTTGTGGCTGTGCCGTGCGCGTGAGCCCCGhide sequence |
| RefSeq Acc Id: | XM_006233334 ⟹ XP_006233396 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
ATTACCTTCCTCCTAAGGTCTCCTTCCGGTTCTCGATGCTTCTCTGAGTCTAAGGGTTTCCGCChide sequence |
| RefSeq Acc Id: | XM_006233335 ⟹ XP_006233397 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
CCCCAAGCCAGGAAGAGAGCACAAAACTGCCCTTAAGTCATTGCAGACCCGGAGCTCCGGTGAGhide sequence |
| RefSeq Acc Id: | XM_006233336 ⟹ XP_006233398 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
GCAGCTGGCAGTAGTTCCGTCAGAGCGGACATCTTGTGGCTGTGCCGTGCGCGTGAGCCCCGTAhide sequence |
| RefSeq Acc Id: | XM_006233337 ⟹ XP_006233399 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
ATTACCTTCCTCCTAAGGTCTCCTTCCGGTTCTCGATGCTTCTCTGAGTCTAAGGGTTTCCGCChide sequence |
| RefSeq Acc Id: | XM_006233338 ⟹ XP_006233400 | ||||||||||||
| RefSeq Status: | |||||||||||||
| Type: | CODING | ||||||||||||
| Position: |
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| Sequence: |
ATTTGGGGGCGGGCCCCAAGCCAGGAAGAGAGCACAAAACTGCCCTTAAGTCATTGCAGACCCGhide sequence |
Protein Sequences| Protein RefSeqs | NP_112516 | (Get FASTA) | NCBI Sequence Viewer |
| XP_006233395 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006233396 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006233397 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006233398 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006233399 | (Get FASTA) | NCBI Sequence Viewer | |
| XP_006233400 | (Get FASTA) | NCBI Sequence Viewer | |
| GenBank Protein | AAA85100 | (Get FASTA) | NCBI Sequence Viewer |
| AAH72696 | (Get FASTA) | NCBI Sequence Viewer | |
| BAA87330 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82261 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82262 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82263 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82264 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82265 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82266 | (Get FASTA) | NCBI Sequence Viewer | |
| EDL82267 | (Get FASTA) | NCBI Sequence Viewer | |
| P61078 | (Get FASTA) | NCBI Sequence Viewer |
Reference Sequences
| RefSeq Acc Id: | NP_112516 ⟸ NM_031237 |
| - UniProtKB: | P61078 (UniProtKB/Swiss-Prot) |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | XP_006233400 ⟸ XM_006233338 |
| - Peptide Label: | isoform X2 |
| - UniProtKB: | P61078 (UniProtKB/Swiss-Prot) |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | XP_006233397 ⟸ XM_006233335 |
| - Peptide Label: | isoform X1 |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | XP_006233396 ⟸ XM_006233334 |
| - Peptide Label: | isoform X1 |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | XP_006233399 ⟸ XM_006233337 |
| - Peptide Label: | isoform X2 |
| - UniProtKB: | P61078 (UniProtKB/Swiss-Prot) |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | XP_006233395 ⟸ XM_006233333 |
| - Peptide Label: | isoform X1 |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | XP_006233398 ⟸ XM_006233336 |
| - Peptide Label: | isoform X2 |
| - UniProtKB: | P61078 (UniProtKB/Swiss-Prot) |
| - Sequence: |
MALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPhide sequence |
| RefSeq Acc Id: | ENSRNOP00000069374 ⟸ ENSRNOT00000079694 |
| RefSeq Acc Id: | ENSRNOP00000060962 ⟸ ENSRNOT00000066204 |
| RefSeq Acc Id: | ENSRNOP00000074051 ⟸ ENSRNOT00000083181 |
Protein Domains
UBIQUITIN_CONJUGAT_2
TranscriptomePromoters| 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: |
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Strain Variation
Strain Sequence Variants (Rnor 6.0)
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Additional Information
External Database Links| Database | Acc Id | Source(s) |
| AGR Gene | RGD:619912 | AgrOrtholog |
| Ensembl Genes | ENSRNOG00000013741 | Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot |
| Ensembl Protein | ENSRNOP00000060962 | ENTREZGENE, UniProtKB/Swiss-Prot |
| ENSRNOP00000069374 | ENTREZGENE, UniProtKB/TrEMBL | |
| ENSRNOP00000074051 | UniProtKB/TrEMBL | |
| Ensembl Transcript | ENSRNOT00000066204 | ENTREZGENE, UniProtKB/Swiss-Prot |
| ENSRNOT00000079694 | ENTREZGENE, UniProtKB/TrEMBL | |
| ENSRNOT00000083181 | UniProtKB/TrEMBL | |
| Gene3D-CATH | 3.10.110.10 | UniProtKB/Swiss-Prot |
| IMAGE_CLONE | IMAGE:7105617 | IMAGE-MGC_LOAD |
| InterPro | UBQ-conjugat_E2 | UniProtKB/Swiss-Prot |
| UBQ-conjugating_AS | UniProtKB/Swiss-Prot | |
| UBQ-conjugating_enzyme/RWD | UniProtKB/Swiss-Prot | |
| KEGG Report | rno:81920 | UniProtKB/Swiss-Prot |
| MGC_CLONE | MGC:91644 | IMAGE-MGC_LOAD |
| NCBI Gene | 81920 | ENTREZGENE |
| Pfam | UQ_con | UniProtKB/Swiss-Prot |
| PhenoGen | Ube2d3 | PhenoGen |
| PROSITE | UBIQUITIN_CONJUGAT_1 | UniProtKB/Swiss-Prot |
| UBIQUITIN_CONJUGAT_2 | UniProtKB/Swiss-Prot | |
| Superfamily-SCOP | SSF54495 | UniProtKB/Swiss-Prot |
| UniGene | Rn.2778 | ENTREZGENE |
| UniProt | A0A0G2JV72_RAT | UniProtKB/TrEMBL |
| A0A0G2K739_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 |
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| More on Ube2d3 | |
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Alliance Gene |
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NCBI Gene |
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Ensembl Gene |
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JBrowse: rn5 rn6 |
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NCBI Genome Data Viewer |
| RGD Object Information | |
| RGD ID: | 619912 |
| Created: | 2002-08-06 |
| Species: | Rattus norvegicus |
| Last Modified: | 2020-06-09 |
| Status: | ACTIVE |
