Cdc34 (cell division cycle 34, ubiqiutin conjugating enzyme) - Rat Genome Database

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Gene: Cdc34 (cell division cycle 34, ubiqiutin conjugating enzyme) Rattus norvegicus
Analyze
Symbol: Cdc34
Name: cell division cycle 34, ubiqiutin conjugating enzyme
RGD ID: 1305411
Description: Predicted to enable ubiquitin conjugating enzyme activity. Involved in positive regulation of inclusion body assembly; positive regulation of neuron apoptotic process; and response to growth factor. Predicted to be located in cytosol and nuclear speck. Orthologous to human CDC34 (cell division cycle 34, ubiqiutin conjugating enzyme); PARTICIPATES IN ubiquitin/proteasome degradation pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4,6-trinitrotoluene; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: cell division cycle 34; cell division cycle 34 homolog; cell division cycle 34 homolog (S. cerevisiae); LOC299602; MGC116225; serine protease; ubiquitin-conjugating enzyme Cdc34; ubiquitin-conjugating enzyme E2 R1
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
mRatBN7.2710,017,588 - 10,023,586 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl710,017,588 - 10,023,186 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx712,898,439 - 12,903,841 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0714,776,519 - 14,781,920 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0712,635,935 - 12,641,338 (-)NCBIRnor_WKY
Rnor_6.0712,899,957 - 12,905,339 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,899,958 - 12,905,339 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0713,068,993 - 13,074,382 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,534,543 - 11,539,941 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1711,536,995 - 11,537,397 (-)NCBI
Celera78,190,966 - 8,196,364 (-)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-citrinin  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrotoluene  (EXP)
2,4-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
2-methylcholine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
5-fluorouracil  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
alpha-pinene  (ISO)
aristolochic acid  (ISO)
Aroclor 1254  (EXP,ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bortezomib  (ISO)
bromobenzene  (EXP)
cadmium dichloride  (EXP)
carbon nanotube  (ISO)
choline  (ISO)
clofibrate  (ISO)
copper(II) chloride  (ISO)
cryptolepine  (ISO)
cyclosporin A  (ISO)
cyproconazole  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dieldrin  (EXP)
dioxygen  (ISO)
epoxiconazole  (ISO)
ethanol  (EXP)
fenthion  (ISO)
flutamide  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
Licochalcone B  (ISO)
metformin  (ISO)
methapyrilene  (EXP)
methotrexate  (ISO)
methylmercury chloride  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
nickel sulfate  (ISO)
ochratoxin A  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (ISO)
pentachlorophenol  (ISO)
perfluorooctanoic acid  (EXP)
phenobarbital  (ISO)
PhIP  (ISO)
piperonyl butoxide  (ISO)
pirinixic acid  (ISO)
propiconazole  (ISO)
rac-lactic acid  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP)
trichloroethene  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
trovafloxacin  (ISO)
urethane  (ISO)
valproic acid  (EXP,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Differential regulation of components of the ubiquitin-proteasome pathway during lens cell differentiation. Guo W, etal., Invest Ophthalmol Vis Sci. 2004 Apr;45(4):1194-201.
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
8. Proteasomal inhibition-induced inclusion formation and death in cortical neurons require transcription and ubiquitination. Rideout HJ and Stefanis L, Mol Cell Neurosci. 2002 Oct;21(2):223-38.
Additional References at PubMed
PMID:7607701   PMID:8889548   PMID:10230407   PMID:10373550   PMID:12477932   PMID:15632090   PMID:20061386   PMID:20347421   PMID:24882218  


Genomics

Comparative Map Data
Cdc34
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2710,017,588 - 10,023,586 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl710,017,588 - 10,023,186 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx712,898,439 - 12,903,841 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0714,776,519 - 14,781,920 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0712,635,935 - 12,641,338 (-)NCBIRnor_WKY
Rnor_6.0712,899,957 - 12,905,339 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl712,899,958 - 12,905,339 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0713,068,993 - 13,074,382 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4711,534,543 - 11,539,941 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1711,536,995 - 11,537,397 (-)NCBI
Celera78,190,966 - 8,196,364 (-)NCBICelera
Cytogenetic Map7q11NCBI
CDC34
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3819531,760 - 542,087 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl19531,760 - 542,092 (+)EnsemblGRCh38hg38GRCh38
GRCh3719531,760 - 542,087 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3619482,733 - 493,087 (+)NCBINCBI36Build 36hg18NCBI36
Build 3419482,732 - 493,086NCBI
Celera19275,911 - 286,006 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef19302,243 - 312,073 (+)NCBIHuRef
CHM1_119531,321 - 541,181 (+)NCBICHM1_1
T2T-CHM13v2.019485,161 - 495,858 (+)NCBIT2T-CHM13v2.0
Cdc34
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391079,518,029 - 79,524,232 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1079,518,029 - 79,524,232 (+)EnsemblGRCm39 Ensembl
GRCm381079,682,193 - 79,688,398 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1079,682,195 - 79,688,398 (+)EnsemblGRCm38mm10GRCm38
MGSCv371079,144,940 - 79,151,143 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361079,085,324 - 79,091,527 (+)NCBIMGSCv36mm8
Celera1080,696,643 - 80,702,713 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Cdc34
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554957,170,419 - 7,178,093 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554957,170,419 - 7,178,093 (-)NCBIChiLan1.0ChiLan1.0
CDC34
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.119480,279 - 512,173 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl19502,766 - 512,173 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v019592,856 - 602,811 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CDC34
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12057,960,506 - 57,967,388 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2057,960,833 - 57,967,371 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2057,763,280 - 57,770,160 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02058,704,017 - 58,710,922 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12057,757,620 - 57,764,520 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02058,237,526 - 58,244,396 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02058,440,773 - 58,447,653 (-)NCBIUU_Cfam_GSD_1.0
Cdc34
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118217,667,522 - 217,674,997 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936588161,455 - 165,656 (+)EnsemblSpeTri2.0
SpeTri2.0NW_004936588160,066 - 167,259 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CDC34
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl277,761,593 - 77,768,395 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1277,761,587 - 77,768,332 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CDC34
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.16262,818 - 280,041 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl6262,860 - 281,513 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660818,799,464 - 8,808,156 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cdc34
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248287,935,550 - 7,942,957 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248287,935,544 - 7,942,627 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cdc34
9 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:86
Count of miRNA genes:69
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000011023
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
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat
2298547Neuinf5Neuroinflammation QTL 53.7nervous system integrity trait (VT:0010566)spinal cord Cd74 protein level (CMO:0002131)7946224658265113Rat
1643004Pain2Pain QTL 21mechanical nociception trait (VT:0002734)self mutilation severity score (CMO:0002145)7946224698011544Rat
1578652Bmd15Bone mineral density QTL 155.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)7986646760460686Rat

Markers in Region
AI327276  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2710,017,754 - 10,017,858 (+)MAPPERmRatBN7.2
Rnor_6.0712,900,124 - 12,900,227NCBIRnor6.0
Rnor_5.0713,069,160 - 13,069,263UniSTSRnor5.0
RGSC_v3.4711,534,710 - 11,534,813UniSTSRGSC3.4
Celera78,191,133 - 8,191,236UniSTS
Cytogenetic Map7q11UniSTS


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 2
Medium 3 43 57 41 19 41 8 11 74 35 39 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000088330   ⟹   ENSRNOP00000074000
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl710,017,588 - 10,023,186 (-)Ensembl
Rnor_6.0 Ensembl712,899,958 - 12,905,339 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000116036   ⟹   ENSRNOP00000095465
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl710,017,926 - 10,023,186 (-)Ensembl
RefSeq Acc Id: NM_001013103   ⟹   NP_001013121
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2710,017,588 - 10,022,987 (-)NCBI
Rnor_6.0712,899,957 - 12,905,339 (-)NCBI
Rnor_5.0713,068,993 - 13,074,382 (-)NCBI
RGSC_v3.4711,534,543 - 11,539,941 (-)RGD
Celera78,190,966 - 8,196,364 (-)RGD
Sequence:
RefSeq Acc Id: XM_039078634   ⟹   XP_038934562
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2710,017,588 - 10,023,586 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001013121 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934562 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA98928 (Get FASTA)   NCBI Sequence Viewer  
  EDL89409 (Get FASTA)   NCBI Sequence Viewer  
  EDL89410 (Get FASTA)   NCBI Sequence Viewer  
  EDL89411 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001013121   ⟸   NM_001013103
- UniProtKB: D4A453 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000074000   ⟸   ENSRNOT00000088330
RefSeq Acc Id: XP_038934562   ⟸   XM_039078634
- Peptide Label: isoform X1
RefSeq Acc Id: ENSRNOP00000095465   ⟸   ENSRNOT00000116036
Protein Domains
UBC core

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A453-F1-model_v2 AlphaFold D4A453 1-235 view protein structure

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:1305411 AgrOrtholog
BioCyc Gene G2FUF-34881 BioCyc
Ensembl Genes ENSRNOG00000060530 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000074000 ENTREZGENE
  ENSRNOP00000074000.1 UniProtKB/TrEMBL
  ENSRNOP00000095465.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000088330 ENTREZGENE
  ENSRNOT00000088330.2 UniProtKB/TrEMBL
  ENSRNOT00000116036.1 UniProtKB/TrEMBL
Gene3D-CATH 3.10.110.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7458604 IMAGE-MGC_LOAD
InterPro UBQ-conjugat/RWD-like UniProtKB/TrEMBL
  UBQ-conjugat_E2 UniProtKB/TrEMBL
  UBQ-conjugating_AS UniProtKB/TrEMBL
KEGG Report rno:299602 UniProtKB/TrEMBL
MGC_CLONE MGC:116225 IMAGE-MGC_LOAD
NCBI Gene 299602 ENTREZGENE
Pfam UQ_con UniProtKB/TrEMBL
PharmGKB CDC34 RGD
PhenoGen Cdc34 PhenoGen
PROSITE UBIQUITIN_CONJUGAT_1 UniProtKB/TrEMBL
  UBIQUITIN_CONJUGAT_2 UniProtKB/TrEMBL
Superfamily-SCOP UBQ-conjugat/RWD-like UniProtKB/TrEMBL
UniProt A0A8I6AJQ8_RAT UniProtKB/TrEMBL
  D4A453 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-04-28 Cdc34  cell division cycle 34, ubiqiutin conjugating enzyme  Cdc34  cell division cycle 34  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-01-31 Cdc34  cell division cycle 34  Cdc34  cell division cycle 34 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cdc34  cell division cycle 34 homolog (S. cerevisiae)   Cdc34_predicted  cell division cycle 34 homolog (S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cdc34_predicted  cell division cycle 34 homolog (S. cerevisiae) (predicted)      Symbol and Name status set to approved 70820 APPROVED