PSMD13 (proteasome 26S subunit, non-ATPase 13) - Rat Genome Database

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Gene: PSMD13 (proteasome 26S subunit, non-ATPase 13) Canis lupus familiaris
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Symbol: PSMD13
Name: proteasome 26S subunit, non-ATPase 13
RGD ID: 12186849
Description: INVOLVED IN meiosis I (ortholog); ASSOCIATED WITH Beckwith-Wiedemann syndrome (ortholog); human immunodeficiency virus infectious disease (ortholog); immunodeficiency 39 (ortholog); FOUND IN proteasome accessory complex (inferred); proteasome complex (inferred); proteasome regulatory particle (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 26S proteasome non-ATPase regulatory subunit 13; proteasome (prosome, macropain) 26S subunit, non-ATPase, 13
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11825,388,212 - 25,401,071 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1825,388,229 - 25,401,070 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1825,038,159 - 25,051,024 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01825,914,884 - 25,927,833 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1825,914,909 - 25,927,831 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11825,482,879 - 25,495,885 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01825,127,656 - 25,140,594 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01825,740,396 - 25,753,256 (+)NCBIUU_Cfam_GSD_1.0
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

Biological Process
meiosis I  (IEA,ISO)

Cellular Component

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
PSMD13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11825,388,212 - 25,401,071 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1825,388,229 - 25,401,070 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1825,038,159 - 25,051,024 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01825,914,884 - 25,927,833 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1825,914,909 - 25,927,831 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11825,482,879 - 25,495,885 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01825,127,656 - 25,140,594 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01825,740,396 - 25,753,256 (+)NCBIUU_Cfam_GSD_1.0
PSMD13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811236,976 - 252,984 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11236,966 - 252,984 (+)EnsemblGRCh38hg38GRCh38
GRCh3711236,976 - 252,984 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3611226,808 - 242,984 (+)NCBINCBI36Build 36hg18NCBI36
Build 3411226,976 - 242,981NCBI
Celera11306,187 - 322,313 (-)NCBICelera
Cytogenetic Map11p15.5NCBI
HuRef1156,490 - 72,652 (+)NCBIHuRef
CHM1_111235,259 - 251,442 (+)NCBICHM1_1
T2T-CHM13v2.011277,982 - 293,919 (+)NCBIT2T-CHM13v2.0
Psmd13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397140,462,307 - 140,478,555 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7140,461,881 - 140,478,556 (+)EnsemblGRCm39 Ensembl
GRCm387140,882,394 - 140,898,642 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7140,881,968 - 140,898,643 (+)EnsemblGRCm38mm10GRCm38
MGSCv377148,068,293 - 148,084,541 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367140,733,714 - 140,749,962 (+)NCBIMGSCv36mm8
Celera7140,674,681 - 140,690,962 (+)NCBICelera
Cytogenetic Map7F5NCBI
cM Map786.09NCBI
Psmd13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81205,394,248 - 205,406,525 (+)NCBIGRCr8
mRatBN7.21195,964,617 - 195,976,895 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1195,964,138 - 195,976,905 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1204,318,943 - 204,331,548 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01211,445,846 - 211,458,434 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01204,119,697 - 204,132,285 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01213,636,159 - 213,648,499 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1213,636,093 - 213,648,488 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01220,561,663 - 220,574,033 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41201,044,403 - 201,057,026 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11201,194,414 - 201,206,667 (+)NCBI
Celera1193,608,457 - 193,620,908 (+)NCBICelera
Cytogenetic Map1q41NCBI
Psmd13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547611,780,791 - 11,794,839 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495547611,782,461 - 11,794,839 (-)NCBIChiLan1.0ChiLan1.0
PSMD13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v292,606,169 - 2,622,545 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1111,761,592 - 1,778,058 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v011233,691 - 250,184 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111278,353 - 294,685 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11275,304 - 294,685 (+)Ensemblpanpan1.1panPan2
Psmd13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494778,579 - 91,026 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493688878,463 - 91,134 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493688878,468 - 91,026 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PSMD13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl255,108 - 74,829 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1255,108 - 68,854 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22162,155,822 - 162,169,562 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PSMD13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1149,510 - 67,353 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366603897,063,307 - 97,081,724 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Psmd13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476622,187,068 - 22,199,630 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476622,188,064 - 22,199,721 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in PSMD13
120 total Variants

Expression

RNA-SEQ Expression

adipose tissue
alimentary part of gastrointestinal system
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
6 5 5 23 22 16 6 6 6 6 33 22 12 14 10

Sequence


Ensembl Acc Id: ENSCAFT00000039828   ⟹   ENSCAFP00000035736
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1825,388,229 - 25,401,070 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000076049   ⟹   ENSCAFP00000050423
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1825,389,541 - 25,401,070 (+)Ensembl
Ensembl Acc Id: ENSCAFT00000085748   ⟹   ENSCAFP00000055518
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl1825,388,229 - 25,401,070 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845050214   ⟹   ENSCAFP00845039371
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1825,914,909 - 25,927,831 (+)Ensembl
Ensembl Acc Id: ENSCAFT00845050243   ⟹   ENSCAFP00845039390
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl1825,914,909 - 25,927,831 (+)Ensembl
RefSeq Acc Id: XM_038423965   ⟹   XP_038279893
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.01825,914,884 - 25,927,833 (+)NCBI
RefSeq Acc Id: XM_038500323   ⟹   XP_038356251
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.11825,482,879 - 25,495,885 (+)NCBI
RefSeq Acc Id: XM_038562886   ⟹   XP_038418814
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.01825,740,396 - 25,753,256 (+)NCBI
RefSeq Acc Id: XM_038627006   ⟹   XP_038482934
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.01825,127,656 - 25,140,594 (+)NCBI
RefSeq Acc Id: XM_843364   ⟹   XP_848457
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.11825,388,212 - 25,401,071 (+)NCBI
Dog10K_Boxer_Tasha1825,038,159 - 25,051,024 (+)NCBI
Sequence:
RefSeq Acc Id: XP_848457   ⟸   XM_843364
- UniProtKB: A0A8C0K3L1 (UniProtKB/TrEMBL),   A0A8C0TIV2 (UniProtKB/TrEMBL),   A0A8I3S6Q5 (UniProtKB/TrEMBL),   A0A8C0K545 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCAFP00000035736   ⟸   ENSCAFT00000039828
Ensembl Acc Id: ENSCAFP00000050423   ⟸   ENSCAFT00000076049
Ensembl Acc Id: ENSCAFP00000055518   ⟸   ENSCAFT00000085748
RefSeq Acc Id: XP_038356251   ⟸   XM_038500323
RefSeq Acc Id: XP_038482934   ⟸   XM_038627006
RefSeq Acc Id: XP_038279893   ⟸   XM_038423965
- UniProtKB: A0A8C0K3L1 (UniProtKB/TrEMBL),   A0A8C0TIV2 (UniProtKB/TrEMBL),   A0A8I3S6Q5 (UniProtKB/TrEMBL),   A0A8C0K545 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038418814   ⟸   XM_038562886
- UniProtKB: A0A8C0K3L1 (UniProtKB/TrEMBL),   A0A8C0K545 (UniProtKB/TrEMBL),   A0A8C0TIV2 (UniProtKB/TrEMBL),   A0A8I3S6Q5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCAFP00845039390   ⟸   ENSCAFT00845050243
Ensembl Acc Id: ENSCAFP00845039371   ⟸   ENSCAFT00845050214
Protein Domains
PCI

Promoters
RGD ID:13686458
Promoter ID:EPDNEW_C4526
Type:initiation region
Name:PSMD13_1
Description:proteasome 26S subunit, non-ATPase 13
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
CanFam3.11825,388,224 - 25,388,284EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000006455 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030007901 UniProtKB/TrEMBL
  ENSCAFG00040022467 UniProtKB/TrEMBL
  ENSCAFG00845028438 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000039828.4 UniProtKB/TrEMBL
  ENSCAFT00000076049.2 UniProtKB/TrEMBL
  ENSCAFT00000085748.2 UniProtKB/TrEMBL
  ENSCAFT00030014522.1 UniProtKB/TrEMBL
  ENSCAFT00030014635.1 UniProtKB/TrEMBL
  ENSCAFT00040041718.1 UniProtKB/TrEMBL
  ENSCAFT00040041768.1 UniProtKB/TrEMBL
  ENSCAFT00845050214 ENTREZGENE
  ENSCAFT00845050214.1 UniProtKB/TrEMBL
  ENSCAFT00845050243.1 UniProtKB/TrEMBL
InterPro PCI_dom UniProtKB/TrEMBL
  PSD13_N UniProtKB/TrEMBL
  PSMD13 UniProtKB/TrEMBL
  WH_DNA-bd_sf UniProtKB/TrEMBL
KEGG Report cfa:475934 UniProtKB/TrEMBL
NCBI Gene PSMD13 ENTREZGENE
PANTHER 26S PROTEASOME NON-ATPASE REGULATORY SUBUNIT 13 UniProtKB/TrEMBL
  PTHR10539 UniProtKB/TrEMBL
Pfam PCI UniProtKB/TrEMBL
  PSD13_N UniProtKB/TrEMBL
PROSITE PCI UniProtKB/TrEMBL
SMART PINT UniProtKB/TrEMBL
Superfamily-SCOP SSF46785 UniProtKB/TrEMBL
UniProt A0A8C0K3L1 ENTREZGENE
  A0A8C0K545 ENTREZGENE
  A0A8C0MP89_CANLF UniProtKB/TrEMBL
  A0A8C0TIV2 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3Q075_CANLF UniProtKB/TrEMBL
  A0A8I3S6Q5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0T327_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:45109 ENTREZGENE