USP4 (ubiquitin specific peptidase 4) - Rat Genome Database

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Gene: USP4 (ubiquitin specific peptidase 4) Sus scrofa
Analyze
Symbol: USP4
Name: ubiquitin specific peptidase 4
RGD ID: 14017967
Description: ENCODES a protein that exhibits adenosine receptor binding (inferred); identical protein binding (inferred); thiol-dependent deubiquitinase (inferred); INVOLVED IN negative regulation of protein ubiquitination (inferred); protein deubiquitination (inferred); protein localization to cell surface (inferred); ASSOCIATED WITH autosomal recessive limb-girdle muscular dystrophy type 2P (ortholog); FOUND IN cytoplasm (inferred); cytosol (inferred); nucleus (inferred)
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: ubiquitin carboxyl-terminal hydrolase 4; ubiquitin specific peptidase 4 (proto-oncogene)
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 Ensembl1331,840,300 - 31,904,348 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21335,075,799 - 35,135,425 (-)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

Cellular Component
cytoplasm  (IEA)
cytosol  (IEA)
nucleus  (IBA,IEA)
plasma membrane  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:17145712  


Genomics

Comparative Map Data
USP4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1331,840,300 - 31,904,348 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21335,075,799 - 35,135,425 (-)NCBISscrofa10.2Sscrofa10.2susScr3
USP4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl349,277,144 - 49,340,712 (-)EnsemblGRCh38hg38GRCh38
GRCh38349,277,144 - 49,340,053 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37349,314,577 - 49,377,486 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36349,289,997 - 49,352,519 (-)NCBINCBI36hg18NCBI36
Build 34349,289,997 - 49,352,519NCBI
Celera349,278,021 - 49,342,350 (-)NCBI
Cytogenetic Map3p21.31NCBI
HuRef349,371,896 - 49,436,532 (-)NCBIHuRef
CHM1_1349,267,379 - 49,330,367 (-)NCBICHM1_1
Usp4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399108,223,763 - 108,269,744 (+)NCBIGRCm39mm39
GRCm39 Ensembl9108,225,052 - 108,269,744 (+)Ensembl
GRCm389108,346,564 - 108,392,545 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9108,347,853 - 108,392,545 (+)EnsemblGRCm38mm10GRCm38
MGSCv379108,250,162 - 108,294,860 (+)NCBIGRCm37mm9NCBIm37
MGSCv369108,205,963 - 108,250,621 (+)NCBImm8
Celera9107,957,048 - 108,001,736 (+)NCBICelera
Cytogenetic Map9F2NCBI
cM Map959.25NCBI
Usp4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.28109,035,402 - 109,080,427 (+)NCBI
Rnor_6.0 Ensembl8117,126,692 - 117,171,012 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.08117,126,692 - 117,171,012 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.08116,474,812 - 116,519,375 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera8108,338,833 - 108,383,118 (+)NCBICelera
Cytogenetic Map8q32NCBI
Usp4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555321,247,110 - 1,285,121 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555321,247,110 - 1,284,564 (-)NCBIChiLan1.0ChiLan1.0
LOC100967331
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1350,279,642 - 50,343,901 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl350,279,642 - 50,343,903 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0349,199,328 - 49,263,861 (-)NCBIMhudiblu_PPA_v0panPan3
USP4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12039,899,880 - 39,952,959 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2039,899,897 - 39,952,420 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2039,818,226 - 39,871,287 (+)NCBI
ROS_Cfam_1.02040,256,219 - 40,309,777 (+)NCBI
UMICH_Zoey_3.12039,623,674 - 39,676,723 (+)NCBI
UNSW_CanFamBas_1.02040,027,139 - 40,080,595 (+)NCBI
UU_Cfam_GSD_1.02040,306,950 - 40,360,016 (+)NCBI
Usp4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560264,180,540 - 64,229,266 (-)NCBI
SpeTri2.0NW_004936529941,042 - 989,781 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12210,672,920 - 10,735,374 (-)NCBI
ChlSab1.1 Ensembl2210,672,388 - 10,732,104 (-)Ensembl
Usp4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247303,252,980 - 3,306,439 (-)NCBI


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 9 2 3 5 8 1 3 3
Low 1 2 2 15 1
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000012460   ⟹   ENSSSCP00000012135
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1331,849,409 - 31,904,214 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000039768   ⟹   ENSSSCP00000046329
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1331,848,934 - 31,904,239 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000059156   ⟹   ENSSSCP00000042245
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1331,840,300 - 31,904,239 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000074066   ⟹   ENSSSCP00000060223
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1331,840,300 - 31,904,239 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000074071   ⟹   ENSSSCP00000060261
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1331,840,300 - 31,904,239 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000089022   ⟹   ENSSSCP00000072683
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1331,848,454 - 31,904,348 (-)Ensembl
RefSeq Acc Id: NM_001243188   ⟹   NP_001230117
RefSeq Status: VALIDATED
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,849,255 - 31,904,377 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005669505   ⟹   XP_005669562
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBI
Sequence:
RefSeq Acc Id: XM_005669506   ⟹   XP_005669563
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013981641   ⟹   XP_013837095
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013981642   ⟹   XP_013837096
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013981644   ⟹   XP_013837098
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,876,202 - 31,904,418 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021068408   ⟹   XP_020924067
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,844,780 - 31,904,418 (-)NCBI
Sequence:
RefSeq Acc Id: XM_021068409   ⟹   XP_020924068
RefSeq Status:
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11331,844,795 - 31,904,418 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_013837096   ⟸   XM_013981642
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_005669563   ⟸   XM_005669506
- Peptide Label: isoform X2
- UniProtKB: A0A287A103 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013837095   ⟸   XM_013981641
- Peptide Label: isoform X3
- UniProtKB: A0A287AEJ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_020924067   ⟸   XM_021068408
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_005669562   ⟸   XM_005669505
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_020924068   ⟸   XM_021068409
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: NP_001230117   ⟸   NM_001243188
- UniProtKB: A0A287AEJ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013837098   ⟸   XM_013981644
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: ENSSSCP00000060261   ⟸   ENSSSCT00000074071
RefSeq Acc Id: ENSSSCP00000060223   ⟸   ENSSSCT00000074066
RefSeq Acc Id: ENSSSCP00000046329   ⟸   ENSSSCT00000039768
RefSeq Acc Id: ENSSSCP00000072683   ⟸   ENSSSCT00000089022
RefSeq Acc Id: ENSSSCP00000042245   ⟸   ENSSSCT00000059156
RefSeq Acc Id: ENSSSCP00000012135   ⟸   ENSSSCT00000012460
Protein Domains
DUSP   USP


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000011382 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00070003928 UniProtKB/TrEMBL
Ensembl Protein ENSSSCP00000012135 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000042245 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000046329 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000060223 UniProtKB/TrEMBL
  ENSSSCP00000060261 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCP00000072683 UniProtKB/TrEMBL
  ENSSSCP00070006146 UniProtKB/TrEMBL
  ENSSSCP00070006169 UniProtKB/TrEMBL
  ENSSSCP00070006185 UniProtKB/TrEMBL
  ENSSSCP00070006213 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000012460 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000039768 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000059156 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000074066 UniProtKB/TrEMBL
  ENSSSCT00000074071 ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCT00000089022 UniProtKB/TrEMBL
  ENSSSCT00070007485 UniProtKB/TrEMBL
  ENSSSCT00070007515 UniProtKB/TrEMBL
  ENSSSCT00070007534 UniProtKB/TrEMBL
  ENSSSCT00070007566 UniProtKB/TrEMBL
InterPro DUSP-like_sf UniProtKB/TrEMBL
  Papain_like_cys_pep_sf UniProtKB/TrEMBL
  Pept_C19_DUSP UniProtKB/TrEMBL
  Peptidase_C19_UCH UniProtKB/TrEMBL
  Ub_USP-typ UniProtKB/TrEMBL
  USP_CS UniProtKB/TrEMBL
  USP_dom UniProtKB/TrEMBL
KEGG Report ssc:100512072 UniProtKB/TrEMBL
NCBI Gene USP4 ENTREZGENE
Pfam DUSP UniProtKB/TrEMBL
  Ubiquitin_3 UniProtKB/TrEMBL
  UCH UniProtKB/TrEMBL
PROSITE DUSP UniProtKB/TrEMBL
  USP_1 UniProtKB/TrEMBL
  USP_2 UniProtKB/TrEMBL
  USP_3 UniProtKB/TrEMBL
SMART DUSP UniProtKB/TrEMBL
Superfamily-SCOP SSF143791 UniProtKB/TrEMBL
  SSF54001 UniProtKB/TrEMBL
UniProt A0A287A103 ENTREZGENE
  A0A287AEJ8 ENTREZGENE, UniProtKB/TrEMBL
  A0A287AQJ4_PIG UniProtKB/TrEMBL
  A0A480JWP0_PIG UniProtKB/TrEMBL
  A0A480T9G5_PIG UniProtKB/TrEMBL
  A0A481ADL5_PIG UniProtKB/TrEMBL
  A0A4X1STE2_PIG UniProtKB/TrEMBL
  A0A4X1SV45_PIG UniProtKB/TrEMBL
  A0A4X1SV69_PIG UniProtKB/TrEMBL
  A0A4X1SVE6_PIG UniProtKB/TrEMBL
  A0A5G2QA39_PIG UniProtKB/TrEMBL
  F1SPT0_PIG UniProtKB/TrEMBL
VGNC ID VGNC:94764 ENTREZGENE