Psmd1 (proteasome 26S subunit, non-ATPase 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   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: Psmd1 (proteasome 26S subunit, non-ATPase 1) Chinchilla lanigera
Analyze
Symbol: Psmd1
Name: proteasome 26S subunit, non-ATPase 1
RGD ID: 8712326
Description: ENCODES a protein that exhibits ubiquitin protein ligase binding (ortholog); ASSOCIATED WITH Bardet-Biedl syndrome (ortholog); genetic disease (ortholog); Joubert syndrome 22 (ortholog); FOUND IN proteasome accessory complex (ortholog); proteasome complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 26S proteasome non-ATPase regulatory subunit 1; proteasome (prosome, macropain) 26S subunit, non-ATPase, 1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554534,314,177 - 4,397,975 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554534,314,177 - 4,397,972 (-)NCBIChiLan1.0ChiLan1.0
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

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Psmd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554534,314,177 - 4,397,975 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554534,314,177 - 4,397,972 (-)NCBIChiLan1.0ChiLan1.0
PSMD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382231,056,867 - 231,172,827 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2231,056,845 - 231,173,116 (+)EnsemblGRCh38hg38GRCh38
GRCh372231,921,581 - 232,037,541 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362231,629,853 - 231,745,717 (+)NCBINCBI36Build 36hg18NCBI36
Build 342231,747,113 - 231,862,978NCBI
Celera2225,697,090 - 225,813,040 (+)NCBICelera
Cytogenetic Map2q37.1NCBI
HuRef2223,763,642 - 223,879,580 (+)NCBIHuRef
CHM1_12231,927,434 - 232,043,006 (+)NCBICHM1_1
T2T-CHM13v2.02231,541,373 - 231,657,315 (+)NCBIT2T-CHM13v2.0
Psmd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39185,992,341 - 86,067,017 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl185,992,109 - 86,066,873 (+)EnsemblGRCm39 Ensembl
GRCm38186,064,619 - 86,139,295 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl186,064,387 - 86,139,151 (+)EnsemblGRCm38mm10GRCm38
MGSCv37187,961,194 - 88,035,870 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36187,895,790 - 87,970,466 (+)NCBIMGSCv36mm8
Celera189,029,935 - 89,104,632 (+)NCBICelera
Cytogenetic Map1C5NCBI
cM Map143.94NCBI
Psmd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8994,157,971 - 94,233,218 (+)NCBIGRCr8
mRatBN7.2986,709,714 - 86,785,213 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl986,709,947 - 86,785,211 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx995,127,954 - 95,203,203 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09100,256,451 - 100,331,701 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0998,638,198 - 98,713,509 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0993,080,618 - 93,155,033 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl993,080,615 - 93,155,027 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0992,810,410 - 92,884,825 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4984,807,822 - 84,882,942 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1984,991,240 - 85,066,357 (+)NCBI
Celera984,130,616 - 84,205,943 (+)NCBICelera
Cytogenetic Map9q35NCBI
PSMD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213133,683,925 - 133,799,403 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B133,698,890 - 133,814,368 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B118,313,158 - 118,428,636 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B237,102,465 - 237,217,364 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B237,102,623 - 237,215,322 (+)Ensemblpanpan1.1panPan2
PSMD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12543,003,127 - 43,096,281 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2543,003,143 - 43,096,271 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2543,563,423 - 43,656,580 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02543,260,096 - 43,353,296 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2543,260,087 - 43,353,277 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12543,188,912 - 43,281,761 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02543,031,707 - 43,124,879 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02543,187,103 - 43,280,333 (+)NCBIUU_Cfam_GSD_1.0
Psmd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303185,177,539 - 185,267,963 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365255,668,186 - 5,762,364 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365255,672,013 - 5,762,035 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PSMD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15131,807,630 - 131,912,866 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115131,807,594 - 131,912,194 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215145,524,735 - 145,629,782 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PSMD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110117,078,347 - 117,199,640 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10117,077,881 - 117,197,586 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604082,243,973 - 82,362,878 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Psmd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248434,369,590 - 4,464,287 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248434,369,592 - 4,464,285 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000014240   ⟹   ENSCLAP00000014083
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554534,314,177 - 4,397,975 (-)Ensembl
RefSeq Acc Id: XM_013519960   ⟹   XP_013375414
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554534,314,177 - 4,397,972 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013375414 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000014083
  ENSCLAP00000014083.1
Reference Protein Sequences
RefSeq Acc Id: XP_013375414   ⟸   XM_013519960
- UniProtKB: A0A8C2VK92 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCLAP00000014083   ⟸   ENSCLAT00000014240
Protein Domains
26S proteasome non-ATPase regulatory subunit 1/RPN2   26S proteasome regulatory subunit RPN2 C-terminal


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000009721 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000014240 ENTREZGENE
  ENSCLAT00000014240.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro 26S_Psome_Rpn2 UniProtKB/TrEMBL
  ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  Proteasome/cyclosome_rpt UniProtKB/TrEMBL
  PSMD1_RPN2_N UniProtKB/TrEMBL
  RPN2_C UniProtKB/TrEMBL
NCBI Gene Psmd1 ENTREZGENE
PANTHER 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT UniProtKB/TrEMBL
  PTHR10943:SF2 UniProtKB/TrEMBL
Pfam HEAT_2 UniProtKB/TrEMBL
  PC_rep UniProtKB/TrEMBL
  RPN2_C UniProtKB/TrEMBL
  RPN2_N UniProtKB/TrEMBL
PIRSF 26S_Psome_Rpn2 UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A8C2VK92 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 Psmd1  proteasome 26S subunit, non-ATPase 1    proteasome (prosome, macropain) 26S subunit, non-ATPase, 1  Symbol and/or name change 5135510 APPROVED