Usp27x (ubiquitin specific peptidase 27, X-linked) - Rat Genome Database

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Gene: Usp27x (ubiquitin specific peptidase 27, X-linked) Rattus norvegicus
Analyze
Symbol: Usp27x
Name: ubiquitin specific peptidase 27, X-linked
RGD ID: 1564628
Description: Predicted to enable peptidase activity. Predicted to be involved in several processes, including defense response to virus; positive regulation of type I interferon-mediated signaling pathway; and protein stabilization. Human ortholog(s) of this gene implicated in non-syndromic X-linked intellectual disability 105. Orthologous to human USP27X (ubiquitin specific peptidase 27 X-linked); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; baicalin; bisphenol A.
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: LOC302566; RGD1564628; similar to ubiquitin specific protease 27, X chromosome; ubiquitin carboxyl-terminal hydrolase 27; ubiquitin specific peptidase 27, X chromosome; ubiquitin specific peptidase 27, X-linked, pseudogene 1; Usp27x-ps1
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
GRCr8X17,795,506 - 17,798,741 (+)NCBIGRCr8
mRatBN7.2X15,123,620 - 15,126,855 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX15,124,596 - 15,125,912 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,937,954 - 19,941,190 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,142,127 - 20,145,363 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X16,407,087 - 16,410,323 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,987,964 - 15,991,149 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,988,604 - 15,990,484 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,772,644 - 16,775,829 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X27,189,208 - 27,199,805 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX15,204,195 - 15,207,324 (+)NCBICelera
Cytogenetic MapXq12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

References

References - curated
# Reference Title Reference Citation
1. GOA pipeline RGD automated data pipeline
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:27013495  


Genomics

Comparative Map Data
Usp27x
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X17,795,506 - 17,798,741 (+)NCBIGRCr8
mRatBN7.2X15,123,620 - 15,126,855 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX15,124,596 - 15,125,912 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX19,937,954 - 19,941,190 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X20,142,127 - 20,145,363 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X16,407,087 - 16,410,323 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X15,987,964 - 15,991,149 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX15,988,604 - 15,990,484 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X16,772,644 - 16,775,829 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X27,189,208 - 27,199,805 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX15,204,195 - 15,207,324 (+)NCBICelera
Cytogenetic MapXq12NCBI
USP27X
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X49,879,484 - 49,882,558 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX49,879,484 - 49,882,558 (+)EnsemblGRCh38hg38GRCh38
GRCh37X49,644,087 - 49,647,162 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X49,530,949 - 49,533,210 (+)NCBINCBI36Build 36hg18NCBI36
CeleraX53,713,777 - 53,716,476 (+)NCBICelera
Cytogenetic MapXp11.23NCBI
HuRefX47,113,635 - 47,116,334 (+)NCBIHuRef
CHM1_1X49,724,245 - 49,726,944 (+)NCBICHM1_1
T2T-CHM13v2.0X49,195,374 - 49,198,448 (+)NCBIT2T-CHM13v2.0
Usp27x
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X7,238,830 - 7,242,069 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX7,237,513 - 7,242,069 (-)EnsemblGRCm39 Ensembl
GRCm38X7,372,591 - 7,375,830 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX7,371,276 - 7,375,830 (-)EnsemblGRCm38mm10GRCm38
GRCm38.p6 EnsemblX7,371,274 - 7,375,830 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X6,949,717 - 6,952,956 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X6,528,235 - 6,532,785 (-)NCBIMGSCv36mm8
CeleraX4,096,292 - 4,099,273 (+)NCBICelera
Cytogenetic MapXA1.1NCBI
cM MapX3.31NCBI
Usp27x
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555431,023,931 - 1,027,048 (+)NCBIChiLan1.0ChiLan1.0
USP27X
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X51,306,617 - 51,310,196 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X51,309,993 - 51,313,493 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X42,093,799 - 42,097,346 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X49,808,212 - 49,811,792 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX49,809,559 - 49,810,875 (+)Ensemblpanpan1.1panPan2
USP27X
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X42,645,534 - 42,648,801 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX17,022,297 - 17,026,773 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X42,786,958 - 42,790,207 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1X42,769,636 - 42,774,112 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X42,758,487 - 42,761,735 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X42,853,307 - 42,856,556 (+)NCBIUU_Cfam_GSD_1.0
Usp27x
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X35,156,310 - 35,159,329 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367211,396,103 - 1,399,745 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367211,396,103 - 1,399,718 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
USP27X
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX43,555,005 - 43,556,321 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X43,553,454 - 43,557,247 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X48,462,214 - 48,465,981 (-)NCBISscrofa10.2Sscrofa10.2susScr3
USP27X
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X46,718,329 - 46,728,205 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666086309,144 - 313,397 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Usp27x
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248931,314,670 - 1,329,853 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248931,314,670 - 1,329,823 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Usp27x
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:60
Count of miRNA genes:50
Interacting mature miRNAs:53
Transcripts:ENSRNOT00000003800
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
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat


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 2 2 2 50 5
Low 3 35 47 31 19 31 1 1 24 35 36 11 1
Below cutoff 8 8 8 8 7 10 7

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000003800   ⟹   ENSRNOP00000062485
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX15,124,596 - 15,125,912 (+)Ensembl
Rnor_6.0 EnsemblX15,988,604 - 15,990,484 (+)Ensembl
RefSeq Acc Id: NM_001401128   ⟹   NP_001388057
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X17,795,506 - 17,798,741 (+)NCBI
mRatBN7.2X15,123,620 - 15,126,855 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001388057 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000062485
  ENSRNOP00000062485.3
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000062485   ⟸   ENSRNOT00000003800
RefSeq Acc Id: NP_001388057   ⟸   NM_001401128
- UniProtKB: D3ZGB0 (UniProtKB/TrEMBL),   A6KPA9 (UniProtKB/TrEMBL)
Protein Domains
UBP-type   USP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZGB0-F1-model_v2 AlphaFold D3ZGB0 1-438 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:1564628 AgrOrtholog
BioCyc Gene G2FUF-2898 BioCyc
Ensembl Genes ENSRNOG00000002844 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000003800 ENTREZGENE
  ENSRNOT00000003800.8 UniProtKB/TrEMBL
Gene3D-CATH Cysteine proteinases UniProtKB/TrEMBL
  Zinc/RING finger domain, C3HC4 (zinc finger) UniProtKB/TrEMBL
InterPro Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C19_UCH UniProtKB/TrEMBL
  USP_CS UniProtKB/TrEMBL
  USP_dom UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
  Znf_UBP UniProtKB/TrEMBL
NCBI Gene 302566 ENTREZGENE
PANTHER UBIQUITIN CARBOXYL-TERMINAL HYDROLASE UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 27 UniProtKB/TrEMBL
Pfam UCH UniProtKB/TrEMBL
  zf-UBP UniProtKB/TrEMBL
PhenoGen Usp27x PhenoGen
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
  USP_1 UniProtKB/TrEMBL
  USP_2 UniProtKB/TrEMBL
  USP_3 UniProtKB/TrEMBL
  ZF_UBP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002844 RatGTEx
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  SSF54001 UniProtKB/TrEMBL
UniProt A6KPA9 ENTREZGENE, UniProtKB/TrEMBL
  D3ZGB0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-03-07 Usp27x  ubiquitin specific peptidase 27, X-linked  Usp27x-ps1  ubiquitin specific peptidase 27, X-linked, pseudogene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-06-09 Usp27x-ps1  ubiquitin specific peptidase 27, X-linked, pseudogene 1  Usp27x  ubiquitin specific peptidase 27, X-linked  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-23 Usp27x  ubiquitin specific peptidase 27, X-linked  Usp27x  ubiquitin specific peptidase 27, X chromosome  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Usp27x  ubiquitin specific peptidase 27, X chromosome  RGD1564628_predicted  similar to ubiquitin specific protease 27, X chromosome (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1564628_predicted  similar to ubiquitin specific protease 27, X chromosome (predicted)  LOC302566  similar to ubiquitin specific protease 27, X chromosome  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302566  similar to ubiquitin specific protease 27, X chromosome      Symbol and Name status set to provisional 70820 PROVISIONAL