Usp34 (ubiquitin specific peptidase 34) - Rat Genome Database

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Gene: Usp34 (ubiquitin specific peptidase 34) Rattus norvegicus
Analyze
Symbol: Usp34
Name: ubiquitin specific peptidase 34
RGD ID: 1565181
Description: Predicted to enable cysteine-type deubiquitinase activity and cysteine-type endopeptidase activity. Predicted to be involved in positive regulation of canonical Wnt signaling pathway. Predicted to be active in cytosol and nucleus. Orthologous to human USP34 (ubiquitin specific peptidase 34); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC360990; similar to ubiquitin specific protease 34; ubiquitin carboxyl-terminal hydrolase 34; ubiquitin specific protease 34
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
GRCr814101,487,110 - 101,677,519 (+)NCBIGRCr8
mRatBN7.21497,285,799 - 97,476,376 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1497,286,018 - 97,476,376 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14101,618,406 - 101,808,552 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014102,862,754 - 103,052,913 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01499,334,322 - 99,524,478 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014108,060,653 - 108,264,706 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14108,143,869 - 108,264,706 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014108,136,049 - 108,169,242 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.014104,954,066 - 105,100,563 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414103,990,220 - 104,426,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1496,263,246 - 96,453,075 (+)NCBICelera
Cytogenetic Map14q22NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytosol  (IBA)
nucleus  (IBA)

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:14715245   PMID:15632090   PMID:21383061   PMID:22871113  


Genomics

Comparative Map Data
Usp34
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr814101,487,110 - 101,677,519 (+)NCBIGRCr8
mRatBN7.21497,285,799 - 97,476,376 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1497,286,018 - 97,476,376 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx14101,618,406 - 101,808,552 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.014102,862,754 - 103,052,913 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01499,334,322 - 99,524,478 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.014108,060,653 - 108,264,706 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl14108,143,869 - 108,264,706 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.014108,136,049 - 108,169,242 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.014104,954,066 - 105,100,563 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.414103,990,220 - 104,426,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1496,263,246 - 96,453,075 (+)NCBICelera
Cytogenetic Map14q22NCBI
USP34
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38261,187,463 - 61,471,087 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl261,187,463 - 61,471,087 (-)EnsemblGRCh38hg38GRCh38
GRCh37261,414,598 - 61,698,222 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36261,268,094 - 61,551,353 (-)NCBINCBI36Build 36hg18NCBI36
Build 34261,326,887 - 61,544,591NCBI
Celera261,259,053 - 61,542,286 (-)NCBICelera
Cytogenetic Map2p15NCBI
HuRef261,155,323 - 61,406,983 (-)NCBIHuRef
CHM1_1261,345,076 - 61,628,268 (-)NCBICHM1_1
T2T-CHM13v2.0261,193,315 - 61,476,925 (-)NCBIT2T-CHM13v2.0
Usp34
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391123,256,433 - 23,440,560 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1123,256,895 - 23,440,560 (+)EnsemblGRCm39 Ensembl
GRCm381123,303,185 - 23,490,560 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1123,306,895 - 23,490,560 (+)EnsemblGRCm38mm10GRCm38
MGSCv371123,206,895 - 23,390,560 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361123,297,186 - 23,346,963 (+)NCBIMGSCv36mm8
Celera1125,434,085 - 25,618,456 (+)NCBICelera
Cytogenetic Map11A3.2NCBI
cM Map1114.29NCBI
Usp34
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542422,474,098 - 22,689,322 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542422,434,292 - 22,689,944 (+)NCBIChiLan1.0ChiLan1.0
USP34
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21264,912,972 - 65,196,317 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A64,916,937 - 65,200,268 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A61,272,350 - 61,555,244 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A62,411,168 - 62,643,009 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A62,411,173 - 62,644,812 (-)Ensemblpanpan1.1panPan2
USP34
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11061,264,605 - 61,459,603 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1061,267,478 - 61,511,347 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1061,154,885 - 61,401,035 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01062,273,979 - 62,520,172 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1062,276,482 - 62,520,570 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11061,976,715 - 62,205,083 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01062,261,456 - 62,507,713 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01062,559,525 - 62,802,709 (-)NCBIUU_Cfam_GSD_1.0
Usp34
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629221,670,538 - 21,890,968 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364916,680,950 - 6,869,651 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364916,680,324 - 6,862,053 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP34
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl380,370,691 - 80,587,761 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1380,330,896 - 80,589,514 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2384,382,219 - 84,510,793 (+)NCBISscrofa10.2Sscrofa10.2susScr3
USP34
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11445,516,555 - 45,798,676 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1445,516,587 - 45,798,054 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604566,003,118 - 66,289,921 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Usp34
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624833444,250 - 719,276 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624833444,143 - 719,840 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Usp34
658 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:942
Count of miRNA genes:244
Interacting mature miRNAs:297
Transcripts:ENSRNOT00000038258, ENSRNOT00000056861
Prediction methods:Microtar, 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
631523Pia13Pristane induced arthritis QTL 133.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)144079346098037301Rat
2300197Scl59Serum cholesterol level QTL 59blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1455147478100147478Rat
9590294Uminl4Urine mineral level QTL 45.660.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)1455624247100624247Rat
9589034Epfw11Epididymal fat weight QTL 1160.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)1455624247100624247Rat
2317879Alcrsp27Alcohol response QTL 273.30.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)1456631369101631369Rat
634328Hc5Hypercalciuria QTL 52.3urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)1458184885103184885Rat
1582259Gluco23Glucose level QTL 233.10.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1470053989104886043Rat
1641900Alcrsp11Alcohol response QTL 11alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)1470053989104886043Rat


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
Medium 3 40 52 36 19 36 8 8 74 35 41 11 8
Low 3 5 5 5 3
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000090003   ⟹   ENSRNOP00000068692
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1497,355,683 - 97,476,376 (+)Ensembl
Rnor_6.0 Ensembl14108,143,869 - 108,264,706 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094041   ⟹   ENSRNOP00000081582
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1497,286,018 - 97,476,376 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000110300   ⟹   ENSRNOP00000088502
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1497,286,018 - 97,476,376 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000110345   ⟹   ENSRNOP00000081701
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1497,286,018 - 97,476,376 (+)Ensembl
RefSeq Acc Id: NM_001271196   ⟹   NP_001258125
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,487,153 - 101,677,519 (+)NCBI
mRatBN7.21497,285,984 - 97,476,376 (+)NCBI
Rnor_6.014108,060,653 - 108,264,706 (+)NCBI
Rnor_5.014108,136,049 - 108,169,242 (+)NCBI
Rnor_5.014104,954,066 - 105,100,563 (+)NCBI
Celera1496,263,246 - 96,453,075 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039092231   ⟹   XP_038948159
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,487,110 - 101,677,451 (+)NCBI
mRatBN7.21497,285,799 - 97,476,308 (+)NCBI
RefSeq Acc Id: XM_039092232   ⟹   XP_038948160
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,487,110 - 101,677,451 (+)NCBI
mRatBN7.21497,285,799 - 97,475,753 (+)NCBI
RefSeq Acc Id: XM_039092233   ⟹   XP_038948161
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,487,110 - 101,677,451 (+)NCBI
mRatBN7.21497,285,799 - 97,476,308 (+)NCBI
RefSeq Acc Id: XM_039092234   ⟹   XP_038948162
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,505,362 - 101,677,451 (+)NCBI
mRatBN7.21497,304,130 - 97,475,753 (+)NCBI
RefSeq Acc Id: XM_063273407   ⟹   XP_063129477
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,487,110 - 101,677,451 (+)NCBI
RefSeq Acc Id: XM_063273408   ⟹   XP_063129478
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,508,816 - 101,677,451 (+)NCBI
RefSeq Acc Id: XM_063273409   ⟹   XP_063129479
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr814101,487,110 - 101,674,729 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001258125   ⟸   NM_001271196
- UniProtKB: A0A8I5ZVK3 (UniProtKB/TrEMBL),   A0A8I6GH56 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068692   ⟸   ENSRNOT00000090003
RefSeq Acc Id: XP_038948159   ⟸   XM_039092231
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GH56 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948161   ⟸   XM_039092233
- Peptide Label: isoform X4
- UniProtKB: A0A8I6GH56 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948160   ⟸   XM_039092232
- Peptide Label: isoform X2
- UniProtKB: A0A8I6GH56 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948162   ⟸   XM_039092234
- Peptide Label: isoform X5
- UniProtKB: A6JQ71 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000088502   ⟸   ENSRNOT00000110300
RefSeq Acc Id: ENSRNOP00000081582   ⟸   ENSRNOT00000094041
RefSeq Acc Id: ENSRNOP00000081701   ⟸   ENSRNOT00000110345
RefSeq Acc Id: XP_063129477   ⟸   XM_063273407
- Peptide Label: isoform X3
- UniProtKB: A0A8I5ZT30 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129479   ⟸   XM_063273409
- Peptide Label: isoform X7
RefSeq Acc Id: XP_063129478   ⟸   XM_063273408
- Peptide Label: isoform X6
Protein Domains
USP

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:1565181 AgrOrtholog
BioCyc Gene G2FUF-14775 BioCyc
Ensembl Genes ENSRNOG00000051889 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000090003.2 UniProtKB/TrEMBL
  ENSRNOT00000094041.1 UniProtKB/TrEMBL
  ENSRNOT00000110300.1 UniProtKB/TrEMBL
  ENSRNOT00000110345 ENTREZGENE
  ENSRNOT00000110345.1 UniProtKB/TrEMBL
Gene3D-CATH Cysteine proteinases UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7454096 IMAGE-MGC_LOAD
InterPro ARM-type_fold UniProtKB/TrEMBL
  DUF3517 UniProtKB/TrEMBL
  Papain_like_cys_pep_sf UniProtKB/TrEMBL
  Pept_C19ubi-hydrolase_C_CS UniProtKB/TrEMBL
  Peptidase_C19 UniProtKB/TrEMBL
  UCH/PAN2 UniProtKB/TrEMBL
KEGG Report rno:360990 UniProtKB/TrEMBL
MGC_CLONE MGC:125223 IMAGE-MGC_LOAD
NCBI Gene 360990 ENTREZGENE
PANTHER UBIQUITIN CARBOXYL-TERMINAL HYDROLASE UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 34 UniProtKB/TrEMBL
Pfam DUF3517 UniProtKB/TrEMBL
  UCH UniProtKB/TrEMBL
PhenoGen Usp34 PhenoGen
PROSITE UCH_2_1 UniProtKB/TrEMBL
  UCH_2_2 UniProtKB/TrEMBL
  UCH_2_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000051889 RatGTEx
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
  SSF54001 UniProtKB/TrEMBL
UniProt A0A0G2JTF5_RAT UniProtKB/TrEMBL
  A0A8I5ZT30 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZVK3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GH56 ENTREZGENE, UniProtKB/TrEMBL
  A6JQ71 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-11-29 Usp34  ubiquitin specific peptidase 34  LOC360990  similar to ubiquitin specific protease 34  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC360990  similar to ubiquitin specific protease 34      Symbol and Name status set to provisional 70820 PROVISIONAL