Ubb-ps (ubiquitin B, pseudogene) - 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   new 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
Gene: Ubb-ps (ubiquitin B, pseudogene) Mus musculus
Analyze
Symbol: Ubb-ps
Name: ubiquitin B, pseudogene
RGD ID: 1613210
MGI Page MGI
Description: INTERACTS WITH (1->4)-beta-D-glucan; 2,3',4,4',5-Pentachlorobiphenyl; bisphenol A
Type: pseudo (Ensembl: transcribed_processed_pseudogene)
RefSeq Status: VALIDATED
Previously known as: Gm1821; predicted gene 1821
Related Functional Gene: Ubb  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391446,321,484 - 46,322,414 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1446,321,585 - 46,322,269 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl1446,321,483 - 46,322,457 (+)EnsemblGRCm39 Ensembl
GRCm381446,084,027 - 46,084,957 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1446,084,028 - 46,085,000 (+)EnsemblGRCm38mm10GRCm38
MGSCv371446,703,702 - 46,704,632 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361445,005,904 - 45,006,862 (+)NCBIMGSCv36mm8
MGSCv361437,904,944 - 37,905,903 (+)NCBIMGSCv36mm8
Celera1442,260,417 - 42,260,787 (+)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1423.7NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11752298   PMID:12466851   PMID:15782199   PMID:16141072   PMID:16141073  


Genomics

Variants

.
Variants in Ubb-ps
17 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:103
Count of miRNA genes:100
Interacting mature miRNAs:103
Transcripts:ENSMUST00000111388
Prediction methods:Miranda, 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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4141864Mrdq4_mmodifier of retinal degeneration QTL 4 (mouse)Not determined992324548765082Mouse
27226748Femd8_mfemur midshaft diameter 8, 10 week (mouse)141376927346737457Mouse
27226752Femd4_mfemur midshaft diameter 4, 5 week (mouse)141376927347237457Mouse
1300544Hypn_mhyperinsulinemia (mouse)Not determined141516061649160765Mouse
1301372Sluc13_msusceptibility to lung cancer 13 (mouse)Not determined141882760452827726Mouse
1357589Kdnw2_mkidney weight 2 (mouse)Not determined1420887473121269804Mouse
1357527Epfpq1_mepididymal fat percentage QTL 1 (mouse)Not determined142106245071885801Mouse
14746973Manh76_mmandible shape 76 (mouse)142228721756287217Mouse
4142485Modor2_mmodifier of ocular retardation 2 (mouse)Not determined142492624858179769Mouse
13506929Recrq10_mrecombination rate in male meiosis QTL 10 (mouse)142792195761137449Mouse
10043886Cia49_mcollagen induced arthritis QTL 49 (mouse)Not determined142999699463997133Mouse
27226775Tibl7_mtibia length 7, 5 week (mouse)143032195748837457Mouse
27226744Metcl6_mmetatarsal-calcaneal length 6, 5 week (mouse)143032195752937457Mouse
27226774Tibl15_mtibia length 15, 10 week (mouse)143032195787937436Mouse
1300909Ath13_matherosclerosis 13 (mouse)Not determined143033525064335381Mouse
1300998Cia17_mcollagen induced arthritis 17 (mouse)Not determined143033525064335381Mouse
27226737Metcl12_mmetatarsal-calcaneal length 12, 10 week (mouse)143322195759437449Mouse
27226727Tibl21_mtibia length 21, 16 week (mouse)143412195752937457Mouse
1300625Cosz2_mcocaine seizure 2 (mouse)Not determined143504579768785736Mouse
10043887Cia50_mcollagen induced arthritis QTL 50 (mouse)Not determined143743018571430320Mouse
4142419Tgq26_mtriglyceride QTL 26 (mouse)Not determined4033731974337319Mouse
1301777Bglq15_mbody growth late QTL 15 (mouse)Not determined144296241676962593Mouse
1301424Skull21_mskull morphology 21 (mouse)Not determined144296241676962593Mouse
1300805Mors3_mmodifier of obesity related sterility 3 (mouse)Not determined144303727077037418Mouse
1301091Bbaa21_mB.burgdorferi-associated arthritis 21 (mouse)Not determined144306584777066045Mouse
4141400Nilac8_mnicotine induced locomotor activity 8 (mouse)Not determined144306584777066045Mouse

Markers in Region
RH124192  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map14C1UniSTS
Cytogenetic Map11B2UniSTS
cM Map1135.0UniSTS
Ubc  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map5G1.1UniSTS
Cytogenetic Map14C1UniSTS
Cytogenetic Map11B2UniSTS
cM Map564.18UniSTS
Ubb  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11B2UniSTS
Cytogenetic Map14C1UniSTS
cM Map1138.46UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000111388
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1446,321,585 - 46,322,269 (+)Ensembl
GRCm38.p6 Ensembl1446,084,128 - 46,084,812 (+)Ensembl
RefSeq Acc Id: ENSMUST00000227415
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1446,321,485 - 46,322,457 (+)Ensembl
GRCm38.p6 Ensembl1446,084,028 - 46,085,000 (+)Ensembl
RefSeq Acc Id: ENSMUST00000244431
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1446,321,483 - 46,322,445 (+)Ensembl
RefSeq Acc Id: NR_002875
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391446,321,484 - 46,322,414 (+)NCBI
GRCm381446,084,027 - 46,084,957 (+)ENTREZGENE
MGSCv371446,703,702 - 46,704,632 (+)RGD
Celera1442,260,417 - 42,260,788 (+)NCBI
cM Map14 ENTREZGENE
Sequence:
Protein Sequences
GenBank Protein BAC40360 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
Protein Domains
Ubiquitin-like


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000044285 Ensembl
  ENSMUSG00000121785 Ensembl
InterPro Ubiquitin UniProtKB/TrEMBL
  Ubiquitin-rel_dom UniProtKB/TrEMBL
  Ubiquitin_CS UniProtKB/TrEMBL
  Ubiquitin_subgr UniProtKB/TrEMBL
MGD MGI:3037679 ENTREZGENE
NCBI Gene 218963 ENTREZGENE
PANTHER POLYUBIQUITIN-B UniProtKB/TrEMBL
  UBIQUITIN UniProtKB/TrEMBL
Pfam ubiquitin UniProtKB/TrEMBL
PhenoGen Ubb-ps PhenoGen
PRINTS UBIQUITIN UniProtKB/TrEMBL
PROSITE UBIQUITIN_1 UniProtKB/TrEMBL
  UBIQUITIN_2 UniProtKB/TrEMBL
SMART UBQ UniProtKB/TrEMBL
Superfamily-SCOP SSF54236 UniProtKB/TrEMBL
UniProt Q8C2K3_MOUSE UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-11-27 Ubb-ps  ubiquitin B, pseudogene  Gm1821  predicted gene 1821  Symbol and/or name change 5135510 APPROVED