PSMD5 (proteasome 26S subunit, non-ATPase 5) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: PSMD5 (proteasome 26S subunit, non-ATPase 5) Sus scrofa
Analyze
Symbol: PSMD5
Name: proteasome 26S subunit, non-ATPase 5
RGD ID: 13899518
Description: INVOLVED IN proteasome assembly (inferred); proteasome regulatory particle assembly (inferred); ASSOCIATED WITH genetic disease (ortholog); FOUND IN proteasome accessory complex (ortholog); proteasome regulatory particle, base subcomplex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 26S proteasome non-ATPase regulatory subunit 5; proteasome (prosome, macropain) 26S subunit, non-ATPase, 5; PSMD5 subunit
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1260,846,563 - 260,868,766 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11260,847,403 - 260,868,767 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21292,950,886 - 292,968,734 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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

Biological Process

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:14681463   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
PSMD5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1260,846,563 - 260,868,766 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11260,847,403 - 260,868,767 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21292,950,886 - 292,968,734 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PSMD5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389120,816,053 - 120,842,922 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9120,815,496 - 120,842,951 (-)EnsemblGRCh38hg38GRCh38
GRCh379123,578,331 - 123,605,200 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369122,618,152 - 122,645,027 (-)NCBINCBI36Build 36hg18NCBI36
Build 349120,657,887 - 120,684,760NCBI
Celera994,226,608 - 94,253,482 (-)NCBICelera
Cytogenetic Map9q33.2NCBI
HuRef993,196,283 - 93,222,905 (-)NCBIHuRef
CHM1_19123,725,468 - 123,752,450 (-)NCBICHM1_1
T2T-CHM13v2.09133,012,210 - 133,039,081 (-)NCBIT2T-CHM13v2.0
Psmd5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39234,742,099 - 34,760,983 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl234,739,746 - 34,764,980 (-)EnsemblGRCm39 Ensembl
GRCm38234,852,087 - 34,870,965 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl234,849,734 - 34,874,968 (-)EnsemblGRCm38mm10GRCm38
MGSCv37234,707,609 - 34,726,482 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36234,674,109 - 34,692,931 (-)NCBIMGSCv36mm8
Celera234,552,214 - 34,570,916 (-)NCBICelera
Cytogenetic Map2BNCBI
cM Map222.99NCBI
Psmd5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8338,531,206 - 38,552,085 (-)NCBIGRCr8
mRatBN7.2318,133,715 - 18,151,000 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl318,133,717 - 18,151,029 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx321,201,555 - 21,219,186 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0329,786,577 - 29,804,208 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0328,040,424 - 28,058,065 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0313,916,199 - 13,937,031 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl313,916,203 - 13,933,658 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0319,235,768 - 19,256,608 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4313,861,844 - 13,879,127 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1313,758,221 - 13,775,476 (-)NCBI
Celera312,854,685 - 12,871,959 (-)NCBICelera
Cytogenetic Map3p11NCBI
Psmd5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554197,199,549 - 7,222,783 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554197,199,549 - 7,221,431 (+)NCBIChiLan1.0ChiLan1.0
PSMD5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21118,502,587 - 18,548,453 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1918,504,943 - 18,551,567 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0991,925,333 - 91,970,542 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19120,273,001 - 120,317,212 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9120,290,798 - 120,318,711 (-)Ensemblpanpan1.1panPan2
PSMD5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11173,858,376 - 73,876,090 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1172,271,319 - 72,289,044 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01174,995,929 - 75,013,644 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1174,995,862 - 75,013,670 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11173,504,559 - 73,522,289 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01173,535,529 - 73,553,257 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01174,273,320 - 74,291,048 (-)NCBIUU_Cfam_GSD_1.0
Psmd5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947189,490,927 - 189,515,140 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364879,259,339 - 9,283,607 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364879,259,460 - 9,283,688 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PSMD5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11218,737,490 - 18,763,011 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1218,737,557 - 18,762,744 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603524,249,753 - 24,275,671 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Psmd5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476014,514,934 - 14,542,799 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476014,514,917 - 14,541,503 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PSMD5
673 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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 6 2 3 4 2 20 2 2 1
Low 4 2 1 3 1 2
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000006057   ⟹   ENSSSCP00000005903
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1260,846,563 - 260,868,679 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000022255   ⟹   ENSSSCP00000020748
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1260,846,563 - 260,868,668 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000072176   ⟹   ENSSSCP00000061892
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1260,846,563 - 260,868,679 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000073442   ⟹   ENSSSCP00000073312
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1260,846,563 - 260,868,679 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000095135   ⟹   ENSSSCP00000080609
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1260,862,977 - 260,868,766 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000096470   ⟹   ENSSSCP00000078250
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1260,846,563 - 260,868,668 (-)Ensembl
RefSeq Acc Id: XM_021068163   ⟹   XP_020923822
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11260,847,403 - 260,868,767 (-)NCBI
Sequence:
RefSeq Acc Id: XP_020923822   ⟸   XM_021068163
- UniProtKB: A0A480QIP5 (UniProtKB/TrEMBL),   A0A4X1UT36 (UniProtKB/TrEMBL),   A0A480WXL1 (UniProtKB/TrEMBL),   A0A8D0U547 (UniProtKB/TrEMBL),   A0A8D1BS08 (UniProtKB/TrEMBL),   A0A8D1TJM8 (UniProtKB/TrEMBL),   A0A8D1JGV4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000073312   ⟸   ENSSSCT00000073442
RefSeq Acc Id: ENSSSCP00000005903   ⟸   ENSSSCT00000006057
RefSeq Acc Id: ENSSSCP00000020748   ⟸   ENSSSCT00000022255
RefSeq Acc Id: ENSSSCP00000061892   ⟸   ENSSSCT00000072176
RefSeq Acc Id: ENSSSCP00000078250   ⟸   ENSSSCT00000096470
RefSeq Acc Id: ENSSSCP00000080609   ⟸   ENSSSCT00000095135


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000005507 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00005042458 UniProtKB/TrEMBL
  ENSSSCG00015049035 UniProtKB/TrEMBL
  ENSSSCG00030027620 UniProtKB/TrEMBL
  ENSSSCG00035080884 UniProtKB/TrEMBL
  ENSSSCG00040046756 UniProtKB/TrEMBL
  ENSSSCG00045038949 UniProtKB/TrEMBL
  ENSSSCG00050054981 UniProtKB/TrEMBL
  ENSSSCG00055020224 UniProtKB/TrEMBL
  ENSSSCG00060023959 UniProtKB/TrEMBL
  ENSSSCG00065003765 UniProtKB/TrEMBL
  ENSSSCG00070019216 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000006057.5 UniProtKB/TrEMBL
  ENSSSCT00000022255.4 UniProtKB/TrEMBL
  ENSSSCT00000072176 ENTREZGENE
  ENSSSCT00000072176.2 UniProtKB/TrEMBL
  ENSSSCT00000073442.2 UniProtKB/TrEMBL
  ENSSSCT00000095135.1 UniProtKB/TrEMBL
  ENSSSCT00000096470.1 UniProtKB/TrEMBL
  ENSSSCT00005068373.1 UniProtKB/TrEMBL
  ENSSSCT00005068389.1 UniProtKB/TrEMBL
  ENSSSCT00005068400.1 UniProtKB/TrEMBL
  ENSSSCT00005068412.1 UniProtKB/TrEMBL
  ENSSSCT00015065399.1 UniProtKB/TrEMBL
  ENSSSCT00030038623.1 UniProtKB/TrEMBL
  ENSSSCT00030038628.1 UniProtKB/TrEMBL
  ENSSSCT00030038637.1 UniProtKB/TrEMBL
  ENSSSCT00035111036.1 UniProtKB/TrEMBL
  ENSSSCT00035111037.1 UniProtKB/TrEMBL
  ENSSSCT00040063292.1 UniProtKB/TrEMBL
  ENSSSCT00040063364.1 UniProtKB/TrEMBL
  ENSSSCT00040063416.1 UniProtKB/TrEMBL
  ENSSSCT00045067723.1 UniProtKB/TrEMBL
  ENSSSCT00045067728.1 UniProtKB/TrEMBL
  ENSSSCT00045067733.1 UniProtKB/TrEMBL
  ENSSSCT00050075014.1 UniProtKB/TrEMBL
  ENSSSCT00055039730.1 UniProtKB/TrEMBL
  ENSSSCT00055039810.1 UniProtKB/TrEMBL
  ENSSSCT00055039886.1 UniProtKB/TrEMBL
  ENSSSCT00060032523.1 UniProtKB/TrEMBL
  ENSSSCT00060032529.1 UniProtKB/TrEMBL
  ENSSSCT00060032532.1 UniProtKB/TrEMBL
  ENSSSCT00065005127.1 UniProtKB/TrEMBL
  ENSSSCT00070038006.1 UniProtKB/TrEMBL
  ENSSSCT00070038008.1 UniProtKB/TrEMBL
  ENSSSCT00070038013.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  PSMD5 UniProtKB/TrEMBL
NCBI Gene PSMD5 ENTREZGENE
PANTHER 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 5 UniProtKB/TrEMBL
  PTHR13554 UniProtKB/TrEMBL
Pfam Proteasom_PSMB UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A480QIP5 ENTREZGENE
  A0A480WXL1 ENTREZGENE, UniProtKB/TrEMBL
  A0A4X1USW6_PIG UniProtKB/TrEMBL
  A0A4X1USX1_PIG UniProtKB/TrEMBL
  A0A4X1UT36 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D0LZA6_PIG UniProtKB/TrEMBL
  A0A8D0U547 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1BS08 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1JGV4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1JJB3_PIG UniProtKB/TrEMBL
  A0A8D1TJM8 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FG81_PIG UniProtKB/TrEMBL
  A0A8W4FQF4_PIG UniProtKB/TrEMBL
  I3L9N5_PIG UniProtKB/TrEMBL
UniProt Secondary A0A480QIP5 UniProtKB/TrEMBL
  A0A5G2RF17 UniProtKB/TrEMBL
  F1SME6 UniProtKB/TrEMBL
VGNC ID VGNC:91923 ENTREZGENE