PSMC4 (proteasome 26S subunit, ATPase 4) - 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: PSMC4 (proteasome 26S subunit, ATPase 4) Canis lupus familiaris
Analyze
Symbol: PSMC4
Name: proteasome 26S subunit, ATPase 4
RGD ID: 12089827
Description: ENCODES a protein that exhibits ATP binding (inferred); ATP hydrolysis activity (inferred); proteasome-activating activity (inferred); INVOLVED IN blastocyst development (ortholog); ASSOCIATED WITH amyotrophic lateral sclerosis (ortholog); Carpenter Syndrome 2 (ortholog); congenital hypoplastic anemia (ortholog); FOUND IN cytosolic proteasome complex (ortholog); inclusion body (ortholog); synapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 26S protease regulatory subunit 6B; 26S proteasome regulatory subunit 6B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11113,548,351 - 113,557,725 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1113,548,373 - 113,557,630 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1112,952,245 - 112,961,621 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01114,148,644 - 114,157,982 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,148,650 - 114,157,892 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11113,707,548 - 113,716,884 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01113,340,335 - 113,349,711 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01114,334,441 - 114,343,783 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PSMC4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11113,548,351 - 113,557,725 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1113,548,373 - 113,557,630 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1112,952,245 - 112,961,621 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01114,148,644 - 114,157,982 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1114,148,650 - 114,157,892 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11113,707,548 - 113,716,884 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01113,340,335 - 113,349,711 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01114,334,441 - 114,343,783 (-)NCBIUU_Cfam_GSD_1.0
PSMC4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381939,971,165 - 39,981,764 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1939,971,165 - 39,981,764 (+)EnsemblGRCh38hg38GRCh38
GRCh371940,477,072 - 40,487,671 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361945,168,913 - 45,179,193 (+)NCBINCBI36Build 36hg18NCBI36
Build 341945,168,912 - 45,179,191NCBI
Celera1937,275,447 - 37,285,724 (+)NCBICelera
Cytogenetic Map19q13.2NCBI
HuRef1936,913,453 - 36,924,135 (+)NCBIHuRef
CHM1_11940,476,958 - 40,487,716 (+)NCBICHM1_1
T2T-CHM13v2.01942,791,375 - 42,801,971 (+)NCBIT2T-CHM13v2.0
Psmc4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39727,741,127 - 27,749,517 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl727,741,132 - 27,749,526 (-)EnsemblGRCm39 Ensembl
GRCm38728,041,702 - 28,050,092 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl728,041,707 - 28,050,101 (-)EnsemblGRCm38mm10GRCm38
MGSCv37728,826,721 - 28,835,111 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36727,750,477 - 27,758,803 (-)NCBIMGSCv36mm8
Celera722,608,215 - 22,616,605 (-)NCBICelera
Cytogenetic Map7A3NCBI
cM Map716.11NCBI
Psmc4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8192,476,690 - 92,485,268 (-)NCBIGRCr8
mRatBN7.2183,349,127 - 83,357,497 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl183,348,592 - 83,357,494 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx188,759,384 - 88,767,734 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0197,217,473 - 97,225,843 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0190,515,238 - 90,523,588 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0184,978,220 - 84,986,536 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl184,978,206 - 84,986,581 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0186,194,919 - 86,203,235 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4183,151,149 - 83,159,464 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1183,229,258 - 83,237,575 (-)NCBI
Celera177,748,725 - 77,757,041 (-)NCBICelera
Cytogenetic Map1q21NCBI
Psmc4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555781,113,445 - 1,120,370 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555781,113,445 - 1,120,050 (-)NCBIChiLan1.0ChiLan1.0
PSMC4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22046,232,549 - 46,243,056 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11948,103,185 - 48,113,698 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01937,018,112 - 37,028,490 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11945,533,141 - 45,543,245 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1945,533,141 - 45,543,245 (+)Ensemblpanpan1.1panPan2
Psmc4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934914,094,546 - 14,100,215 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366612,522,615 - 2,528,284 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366612,522,665 - 2,528,279 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PSMC4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl648,406,376 - 48,416,215 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1648,406,237 - 48,414,470 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PSMC4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1634,486,303 - 34,495,392 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl634,486,338 - 34,495,251 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607312,578,624 - 12,587,383 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Psmc4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624925119,777 - 130,723 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624925119,837 - 127,678 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PSMC4
104 total Variants

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 reproductive system respiratory system adipose tissue
High
Medium 5 5 22 6 6 6 6 6 12 8 10 6
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000008685   ⟹   ENSCAFP00000008051
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1113,548,373 - 113,557,630 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845007350   ⟹   ENSCAFP00845005828
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1114,148,650 - 114,157,892 (-)Ensembl
RefSeq Acc Id: XM_005616577   ⟹   XP_005616634
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11113,548,351 - 113,557,725 (-)NCBI
Dog10K_Boxer_Tasha1112,952,245 - 112,961,621 (-)NCBI
Sequence:
RefSeq Acc Id: XM_038468147   ⟹   XP_038324075
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11113,707,548 - 113,716,884 (-)NCBI
RefSeq Acc Id: XM_038528897   ⟹   XP_038384825
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01114,334,441 - 114,343,783 (-)NCBI
RefSeq Acc Id: XM_038593166   ⟹   XP_038449094
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01113,340,335 - 113,349,711 (-)NCBI
RefSeq Acc Id: XM_038656994   ⟹   XP_038512922
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01114,148,644 - 114,157,982 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_005616634   ⟸   XM_005616577
- UniProtKB: A0A8C0SF08 (UniProtKB/TrEMBL),   A0A8C0KT89 (UniProtKB/TrEMBL),   A0A8I3MR89 (UniProtKB/TrEMBL),   A0A8C0LWE0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000008051   ⟸   ENSCAFT00000008685
RefSeq Acc Id: XP_038324075   ⟸   XM_038468147
RefSeq Acc Id: XP_038449094   ⟸   XM_038593166
RefSeq Acc Id: XP_038512922   ⟸   XM_038656994
- UniProtKB: A0A8C0SF08 (UniProtKB/TrEMBL),   A0A8C0KT89 (UniProtKB/TrEMBL),   A0A8I3MR89 (UniProtKB/TrEMBL),   A0A8C0LWE0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038384825   ⟸   XM_038528897
- UniProtKB: A0A8C0KT89 (UniProtKB/TrEMBL),   A0A8C0LWE0 (UniProtKB/TrEMBL),   A0A8C0SF08 (UniProtKB/TrEMBL),   A0A8I3MR89 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845005828   ⟸   ENSCAFT00845007350
Protein Domains
AAA+ ATPase

Promoters
RGD ID:13682302
Promoter ID:EPDNEW_C371
Type:initiation region
Name:PSMC4_1
Description:proteasome 26S subunit, ATPase 4
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11113,557,645 - 113,557,705EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000005398 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030000909 UniProtKB/TrEMBL
  ENSCAFG00040012331 UniProtKB/TrEMBL
  ENSCAFG00845004088 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000008685.5 UniProtKB/TrEMBL
  ENSCAFT00030001548.1 UniProtKB/TrEMBL
  ENSCAFT00030001567.1 UniProtKB/TrEMBL
  ENSCAFT00040022738.1 UniProtKB/TrEMBL
  ENSCAFT00845007350 ENTREZGENE
  ENSCAFT00845007350.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.8.60 UniProtKB/TrEMBL
  2.40.50.140 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro AAA+_ATPase UniProtKB/TrEMBL
  AAA_lid_3 UniProtKB/TrEMBL
  ATPase_AAA_core UniProtKB/TrEMBL
  ATPase_AAA_CS UniProtKB/TrEMBL
  NA-bd_OB-fold UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  Prot_ATP_ID_OB UniProtKB/TrEMBL
KEGG Report cfa:100855613 UniProtKB/TrEMBL
NCBI Gene PSMC4 ENTREZGENE
PANTHER 26S PROTEASOME REGULATORY SUBUNIT UniProtKB/TrEMBL
  26S PROTEASOME REGULATORY SUBUNIT 6B UniProtKB/TrEMBL
Pfam AAA UniProtKB/TrEMBL
  AAA_lid_3 UniProtKB/TrEMBL
  Prot_ATP_ID_OB UniProtKB/TrEMBL
PROSITE AAA UniProtKB/TrEMBL
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8C0KT89 ENTREZGENE
  A0A8C0LWE0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0SF08 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3MR89 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:45104 ENTREZGENE