Psmd10 (proteasome 26S subunit, non-ATPase 10) - Rat Genome Database

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Gene: Psmd10 (proteasome 26S subunit, non-ATPase 10) Rattus norvegicus
Analyze
Symbol: Psmd10 (Ensembl: AABR07040855.1)
Name: proteasome 26S subunit, non-ATPase 10
RGD ID: 620350
Description: Predicted to enable several functions, including RNA polymerase II-specific DNA-binding transcription factor binding activity; cytoskeletal protein binding activity; and transmembrane transporter binding activity. Predicted to be involved in several processes, including negative regulation of signal transduction; positive regulation of protein metabolic process; and proteasome regulatory particle assembly. Predicted to be located in cytosol and intermediate filament cytoskeleton. Predicted to be part of proteasome regulatory particle, base subcomplex. Predicted to be active in several cellular components, including cytoskeleton; neuron projection; and nucleus. Orthologous to human PSMD10 (proteasome 26S subunit, non-ATPase 10); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-acetamidofluorene; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 26S proteasome non-ATPase regulatory subunit 10; 26S proteasome regulatory subunit p28; gankyrin; p28Gank; proteasome (prosome, macropain) 26S subunit, non-ATPase, 10
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
GRCr8X109,445,291 - 109,453,605 (-)NCBIGRCr8
mRatBN7.2X104,656,809 - 104,665,122 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX104,656,812 - 104,665,097 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX106,786,812 - 106,794,389 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X110,286,171 - 110,293,748 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X107,840,182 - 107,847,764 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X112,323,188 - 112,328,642 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX112,323,187 - 112,328,642 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0352,274,008 - 52,279,025 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.1X128,864,162 - 128,864,331 (+)NCBI
Celera343,276,201 - 43,283,816 (+)NCBICelera
Cytogenetic MapXq33NCBI
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

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. Proteasomal interactors control activities as diverse as the cell cycle and glutaminergic neurotransmission. Rezvani K, etal., Biochem Soc Trans 2003 Apr;31(2):470-3.
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:10613832   PMID:11301474   PMID:11900540   PMID:12477932   PMID:16023600   PMID:17323924   PMID:18040287   PMID:19490896   PMID:19729910  


Genomics

Comparative Map Data
Psmd10
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X109,445,291 - 109,453,605 (-)NCBIGRCr8
mRatBN7.2X104,656,809 - 104,665,122 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX104,656,812 - 104,665,097 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX106,786,812 - 106,794,389 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X110,286,171 - 110,293,748 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X107,840,182 - 107,847,764 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X112,323,188 - 112,328,642 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX112,323,187 - 112,328,642 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0352,274,008 - 52,279,025 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.1X128,864,162 - 128,864,331 (+)NCBI
Celera343,276,201 - 43,283,816 (+)NCBICelera
Cytogenetic MapXq33NCBI
PSMD10
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X108,084,207 - 108,091,542 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX108,084,207 - 108,091,549 (-)EnsemblGRCh38hg38GRCh38
GRCh37X107,327,437 - 107,334,772 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X107,214,093 - 107,221,504 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X107,133,581 - 107,140,993NCBI
CeleraX107,798,909 - 107,806,320 (-)NCBICelera
Cytogenetic MapXq22.3NCBI
HuRefX96,950,118 - 96,957,560 (-)NCBIHuRef
CHM1_1X107,238,312 - 107,245,750 (-)NCBICHM1_1
T2T-CHM13v2.0X106,521,803 - 106,529,138 (-)NCBIT2T-CHM13v2.0
Psmd10
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X139,849,174 - 139,857,460 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX139,849,178 - 139,857,477 (-)EnsemblGRCm39 Ensembl
GRCm38X140,948,425 - 140,956,711 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX140,948,429 - 140,956,728 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X137,482,964 - 137,491,250 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X136,294,902 - 136,303,045 (-)NCBIMGSCv36mm8
CeleraX124,203,589 - 124,211,948 (-)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX61.67NCBI
Psmd10
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554907,825,251 - 7,833,772 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554907,825,202 - 7,832,347 (+)NCBIChiLan1.0ChiLan1.0
PSMD10
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X107,565,318 - 107,572,651 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X107,568,922 - 107,576,255 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X97,182,090 - 97,189,523 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X107,552,180 - 107,559,616 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX107,552,186 - 107,559,616 (-)Ensemblpanpan1.1panPan2
PSMD10
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X81,625,288 - 81,632,175 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX81,625,141 - 81,632,129 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX67,744,887 - 67,752,996 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X83,273,600 - 83,281,719 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX83,273,405 - 83,281,649 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X80,732,655 - 80,740,768 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X82,445,205 - 82,453,318 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X82,236,960 - 82,244,460 (-)NCBIUU_Cfam_GSD_1.0
Psmd10
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X80,958,954 - 80,966,256 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364996,691,476 - 6,702,986 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364996,691,758 - 6,698,515 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PSMD10
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX88,540,376 - 88,548,560 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X88,540,261 - 88,548,593 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X102,980,406 - 102,988,628 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PSMD10
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X95,931,710 - 95,939,145 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX95,931,466 - 95,939,218 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606521,030,084 - 21,037,519 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Psmd10
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248038,407,462 - 8,420,316 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Psmd10
7 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:19
Count of miRNA genes:14
Interacting mature miRNAs:18
Transcripts:ENSRNOT00000074133
Prediction methods:Miranda, Rnahybrid, Targetscan
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
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
1598809Memor15Memory QTL 154.4exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X103312877148312877Rat
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat

Markers in Region
RH129063  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X104,657,347 - 104,657,564 (-)MAPPERmRatBN7.2
Rnor_6.0X112,311,362 - 112,311,578NCBIRnor6.0
Rnor_5.0352,290,602 - 52,290,818UniSTSRnor5.0
RGSC_v3.4X128,790,838 - 128,791,054UniSTSRGSC3.4
Celera343,283,756 - 43,283,972UniSTS
RH 3.4 Map71125.31UniSTS
RH130489  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X104,656,950 - 104,657,132 (-)MAPPERmRatBN7.2
Rnor_6.0X112,311,794 - 112,311,975NCBIRnor6.0
Rnor_5.0352,290,205 - 52,290,386UniSTSRnor5.0
RGSC_v3.4X128,791,270 - 128,791,451UniSTSRGSC3.4
Celera343,284,188 - 43,284,369UniSTS
RH 3.4 Map71125.61UniSTS


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 3 4 38 22 19 22 1 1 74 35 40 11 1
Low 39 19 19 19 7 10 1 7
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000083150   ⟹   ENSRNOP00000071060
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX104,660,293 - 104,665,097 (-)Ensembl
Rnor_6.0 EnsemblX112,323,187 - 112,328,642 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000086698   ⟹   ENSRNOP00000071909
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX104,656,815 - 104,665,090 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000106019   ⟹   ENSRNOP00000082840
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX104,656,812 - 104,665,096 (-)Ensembl
RefSeq Acc Id: NM_001411753   ⟹   NP_001398682
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X109,445,291 - 109,453,605 (-)NCBI
mRatBN7.2X104,656,809 - 104,665,122 (-)NCBI
RefSeq Acc Id: NM_001411754   ⟹   NP_001398683
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X109,445,291 - 109,453,605 (-)NCBI
mRatBN7.2X104,656,809 - 104,665,122 (-)NCBI
RefSeq Acc Id: NM_053925   ⟹   NP_446377
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X109,445,291 - 109,453,605 (-)NCBI
mRatBN7.2X104,656,809 - 104,665,122 (-)NCBI
Rnor_6.0X112,323,188 - 112,328,642 (-)NCBI
Rnor_5.0352,274,008 - 52,279,025 (+)NCBI
Celera343,276,201 - 43,283,816 (+)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_446377   ⟸   NM_053925
- Peptide Label: isoform 1
- UniProtKB: A0A8I5ZXW8 (UniProtKB/TrEMBL),   A6HLQ8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000071060   ⟸   ENSRNOT00000083150
RefSeq Acc Id: ENSRNOP00000071909   ⟸   ENSRNOT00000086698
RefSeq Acc Id: ENSRNOP00000082840   ⟸   ENSRNOT00000106019
RefSeq Acc Id: NP_001398683   ⟸   NM_001411754
- Peptide Label: isoform 3
- UniProtKB: B0BMV9 (UniProtKB/TrEMBL),   A6HLQ9 (UniProtKB/TrEMBL),   A0A8I5XXS7 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001398682   ⟸   NM_001411753
- Peptide Label: isoform 2
- UniProtKB: A6HLR0 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9Z2X3-F1-model_v2 AlphaFold Q9Z2X3 1-231 view protein structure

Transcriptome

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

Promoters
RGD ID:13701958
Promoter ID:EPDNEW_R12482
Type:initiation region
Name:Psmd10_1
Description:proteasome 26S subunit, non-ATPase 10
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0X112,328,671 - 112,328,731EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620350 AgrOrtholog
BioCyc Gene G2FUF-1530 BioCyc
Ensembl Genes ENSRNOG00000051669 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000057649 Ensembl
Ensembl Transcript ENSRNOT00000083150.2 UniProtKB/TrEMBL
  ENSRNOT00000086698 ENTREZGENE
  ENSRNOT00000086698.2 UniProtKB/TrEMBL
  ENSRNOT00000106019 ENTREZGENE
  ENSRNOT00000106019.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:8369120 IMAGE-MGC_LOAD
InterPro Ankyrin_rpt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ankyrin_rpt-contain_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:116722 UniProtKB/Swiss-Prot
MGC_CLONE MGC:187342 IMAGE-MGC_LOAD
NCBI Gene 116722 ENTREZGENE
PANTHER ANK_REP_REGION DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
  ANKYRIN REPEAT DOMAIN-CONTAINING PROTEIN 39-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ANKYRIN REPEAT DOMAIN-CONTAINING PROTEIN 42 UniProtKB/TrEMBL
  L-ASPARAGINASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MOLTING PROTEIN MLT-4 UniProtKB/TrEMBL
Pfam Ank UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ank_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Psmd10 PhenoGen
PRINTS ANKYRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ANK_REP_REGION UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ANK_REPEAT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000051669 RatGTEx
  ENSRNOG00000057649 RatGTEx
SMART ANK UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48403 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JZI5_RAT UniProtKB/TrEMBL
  A0A8I5XXS7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZXW8 ENTREZGENE, UniProtKB/TrEMBL
  A6HLQ8 ENTREZGENE, UniProtKB/TrEMBL
  A6HLQ9 ENTREZGENE, UniProtKB/TrEMBL
  A6HLR0 ENTREZGENE, UniProtKB/TrEMBL
  B0BMV9 ENTREZGENE
  PSD10_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary B0BMV9 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-19 Psmd10  proteasome 26S subunit, non-ATPase 10  Psmd10  proteasome (prosome, macropain) 26S subunit, non-ATPase, 10  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-26 Psmd10  proteasome (prosome, macropain) 26S subunit, non-ATPase, 10      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Psmd10  proteasome (prosome, macropain) 26S subunit, non-ATPase, 10      Symbol and Name status set to provisional 70820 PROVISIONAL