Cyld-ps1 (CYLD lysine 63 deubiquitinase, pseudogene 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Cyld-ps1 (CYLD lysine 63 deubiquitinase, pseudogene 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Cyld-ps1
Name: CYLD lysine 63 deubiquitinase, pseudogene 1
RGD ID: 1565647
Description: Predicted to enable cysteine-type deubiquitinase activity. Predicted to be involved in several processes, including Wnt signaling pathway; innate immune response; and protein deubiquitination. Predicted to be located in several cellular components, including microtubule cytoskeleton; perinuclear region of cytoplasm; and plasma membrane; INTERACTS WITH gentamycin; thioacetamide.
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: MODEL
Previously known as: cylindromatosis (turban tumor syndrome), pseudogene 1; LOC361373; RGD1565647; similar to cylindromatosis (turban tumor syndrome)
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Related Functional Gene: Cyld  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8519,999,709 - 20,003,695 (+)NCBIGRCr8
mRatBN7.2515,202,074 - 15,205,290 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl515,202,251 - 15,205,291 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0515,087,336 - 15,091,641 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl515,087,349 - 15,090,583 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0519,868,639 - 19,871,857 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4515,428,897 - 15,431,756 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera514,583,748 - 14,588,053 (+)NCBICelera
Cytogenetic Map5q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

Genomics

Variants

.
Variants in Cyld-ps1
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:10
Count of miRNA genes:10
Interacting mature miRNAs:10
Transcripts:ENSRNOT00000011720
Prediction methods:Miranda
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
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5384401847869213Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
2312562Pur18Proteinuria QTL 182.60.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5213896532656739Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5511215947171491Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)5818750118616199Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5384401826141981Rat

Markers in Region
RH136656  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2515,205,932 - 15,206,114 (+)MAPPERmRatBN7.2
mRatBN7.21918,314,285 - 18,314,467 (-)MAPPERmRatBN7.2
mRatBN7.2515,205,932 - 15,206,114 (-)MAPPERmRatBN7.2
mRatBN7.21918,314,285 - 18,314,467 (+)MAPPERmRatBN7.2
Rnor_6.0515,091,227 - 15,091,408NCBIRnor6.0
Rnor_6.01919,264,160 - 19,264,341NCBIRnor6.0
Rnor_5.01930,297,396 - 30,297,577UniSTSRnor5.0
Rnor_5.0519,872,500 - 19,872,681UniSTSRnor5.0
RGSC_v3.4515,432,579 - 15,432,760UniSTSRGSC3.4
RGSC_v3.41919,593,360 - 19,593,541UniSTSRGSC3.4
Celera1918,202,278 - 18,202,459UniSTS
Celera514,587,639 - 14,587,820UniSTS
Cytogenetic Map5q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000011720
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl515,202,251 - 15,205,291 (+)Ensembl
Rnor_6.0 Ensembl515,087,349 - 15,090,583 (+)Ensembl
RefSeq Acc Id: XR_001837873
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0515,087,336 - 15,091,641 (+)NCBI
Sequence:
RefSeq Acc Id: XR_001843572
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera514,583,748 - 14,588,053 (+)NCBI
Sequence:
Protein Sequences
Ensembl Protein ENSRNOP00000084117.1
Protein Domains
CAP-Gly   USP

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
BioCyc Gene G2FUF-42143 BioCyc
Ensembl Genes ENSRNOG00000008861 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000011720.6 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.190 UniProtKB/TrEMBL
  Cysteine proteinases UniProtKB/TrEMBL
InterPro CAP-Gly_dom_sf UniProtKB/TrEMBL
  CAP-Gly_domain UniProtKB/TrEMBL
  Papain-like_cys_pep_sf UniProtKB/TrEMBL
  Peptidase_C19_UCH UniProtKB/TrEMBL
  USP_CS UniProtKB/TrEMBL
  USP_dom UniProtKB/TrEMBL
NCBI Gene 361373 ENTREZGENE
PANTHER 40S RIBOSOMAL PROTEIN S3A UniProtKB/TrEMBL
  UBIQUITIN CARBOXYL-TERMINAL HYDROLASE CYLD UniProtKB/TrEMBL
Pfam CAP_GLY UniProtKB/TrEMBL
  CYLD_phos_site UniProtKB/TrEMBL
  UCH UniProtKB/TrEMBL
PhenoGen Cyld-ps1 PhenoGen
PROSITE CAP_GLY_2 UniProtKB/TrEMBL
  USP_1 UniProtKB/TrEMBL
  USP_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000008861 RatGTEx
SMART CAP_GLY UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
  SSF74924 UniProtKB/TrEMBL
UniProt A0A8I6A0L1_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-05-13 Cyld-ps1  CYLD lysine 63 deubiquitinase, pseudogene 1  Cyld-ps1  cylindromatosis (turban tumor syndrome), pseudogene 1  Name changed 629549 APPROVED
2013-12-13 Cyld-ps1  cylindromatosis (turban tumor syndrome), pseudogene 1  RGD1565647  similar to cylindromatosis (turban tumor syndrome)  Name and Symbol changed 629549 APPROVED
2008-04-30 RGD1565647  similar to cylindromatosis (turban tumor syndrome)   RGD1565647_predicted  similar to cylindromatosis (turban tumor syndrome) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1565647_predicted  similar to cylindromatosis (turban tumor syndrome) (predicted)  LOC361373  similar to cylindromatosis (turban tumor syndrome)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC361373  similar to cylindromatosis (turban tumor syndrome)      Symbol and Name status set to provisional 70820 PROVISIONAL