Ppp1r3d (protein phosphatase 1, regulatory subunit 3D) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Ppp1r3d (protein phosphatase 1, regulatory subunit 3D) Rattus norvegicus
Analyze
Symbol: Ppp1r3d
Name: protein phosphatase 1, regulatory subunit 3D
RGD ID: 1586306
Description: Enables enzyme binding activity. Contributes to phosphoprotein phosphatase activity. Involved in regulation of glycogen biosynthetic process and regulation of glycogen catabolic process. Located in glycogen granule. Orthologous to human PPP1R3D (protein phosphatase 1 regulatory subunit 3D); PARTICIPATES IN glycogen biosynthetic pathway; glycogen degradation pathway; adenosine monophosphate-activated protein kinase (AMPK) signaling pathway; INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; acetamide; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC689995; protein phosphatase 1 regulatory subunit 3D; similar to Protein phosphatase 1 regulatory subunit 3D (Protein phosphatase 1, regulatory subunit 6) (Protein phosphatase 1-binding subunit R6)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83185,880,087 - 185,883,158 (-)NCBIGRCr8
mRatBN7.23165,502,384 - 165,505,455 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3165,502,384 - 165,505,455 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3169,876,489 - 169,879,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03178,835,577 - 178,838,648 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03175,501,947 - 175,505,018 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03173,950,613 - 173,953,684 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3173,950,613 - 173,953,684 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03183,137,515 - 183,140,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43167,505,678 - 167,508,749 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3167,056,456 - 167,059,527 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. The level of the glycogen targetting regulatory subunit R5 of protein phosphatase 1 is decreased in the livers of insulin-dependent diabetic rats and starved rats. Browne GJ, etal., Biochem J. 2001 Dec 1;360(Pt 2):449-59.
2. 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.
3. AMP-activated protein kinase: also regulated by ADP? Hardie DG, etal., Trends Biochem Sci. 2011 Sep;36(9):470-7. doi: 10.1016/j.tibs.2011.06.004. Epub 2011 Jul 23.
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Ppp1r3d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83185,880,087 - 185,883,158 (-)NCBIGRCr8
mRatBN7.23165,502,384 - 165,505,455 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3165,502,384 - 165,505,455 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3169,876,489 - 169,879,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03178,835,577 - 178,838,648 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03175,501,947 - 175,505,018 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03173,950,613 - 173,953,684 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3173,950,613 - 173,953,684 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03183,137,515 - 183,140,586 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43167,505,678 - 167,508,749 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera3167,056,456 - 167,059,527 (+)NCBICelera
Cytogenetic Map3q43NCBI
PPP1R3D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382059,936,663 - 59,940,305 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2059,936,663 - 59,940,305 (-)EnsemblGRCh38hg38GRCh38
GRCh372058,511,718 - 58,515,360 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362057,945,282 - 57,948,747 (-)NCBINCBI36Build 36hg18NCBI36
Build 342057,945,282 - 57,948,747NCBI
Celera2055,252,565 - 55,256,030 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2055,299,100 - 55,302,565 (-)NCBIHuRef
CHM1_12058,412,949 - 58,416,414 (-)NCBICHM1_1
T2T-CHM13v2.02061,720,935 - 61,724,577 (-)NCBIT2T-CHM13v2.0
Ppp1r3d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392178,052,999 - 178,056,256 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2178,052,999 - 178,056,265 (-)EnsemblGRCm39 Ensembl
GRCm382178,411,206 - 178,414,463 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2178,411,206 - 178,414,472 (-)EnsemblGRCm38mm10GRCm38
MGSCv372178,145,911 - 178,149,177 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362178,340,614 - 178,343,929 (-)NCBIMGSCv36mm8
Celera2182,497,614 - 182,500,880 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map299.91NCBI
Ppp1r3d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555283,804,557 - 3,807,309 (+)NCBIChiLan1.0ChiLan1.0
PPP1R3D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22165,705,083 - 65,708,325 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12065,698,203 - 65,701,298 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02056,292,457 - 56,295,977 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12057,644,184 - 57,647,585 (-)NCBIpanpan1.1PanPan1.1panPan2
PPP1R3D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12444,550,028 - 44,551,556 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2444,550,320 - 44,551,219 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2443,794,436 - 43,795,617 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02445,416,651 - 45,417,832 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2445,416,933 - 45,417,832 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12444,518,184 - 44,519,364 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02444,637,780 - 44,638,960 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02445,297,767 - 45,298,948 (-)NCBIUU_Cfam_GSD_1.0
Ppp1r3d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640192,897,627 - 192,900,141 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365148,352,513 - 8,353,409 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365148,350,275 - 8,353,782 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPP1R3D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1759,964,585 - 59,967,113 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11759,963,560 - 59,967,143 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21767,406,676 - 67,409,825 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PPP1R3D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.124,207,963 - 4,211,630 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl24,208,351 - 4,209,250 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605052,250,088 - 52,253,648 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ppp1r3d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474126,207,096 - 26,207,827 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474126,205,076 - 26,208,158 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ppp1r3d
3 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:268
Count of miRNA genes:172
Interacting mature miRNAs:214
Transcripts:ENSRNOT00000075411
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
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat

Markers in Region
RH134110  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23165,502,641 - 165,502,842 (+)MAPPERmRatBN7.2
Rnor_6.03173,950,871 - 173,951,071NCBIRnor6.0
Rnor_5.03183,140,128 - 183,140,328UniSTSRnor5.0
RGSC_v3.43167,505,936 - 167,506,136UniSTSRGSC3.4
Celera3167,059,069 - 167,059,269UniSTS
RH 3.4 Map31501.0UniSTS
Cytogenetic Map3q43UniSTS
RH143923  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23165,505,177 - 165,505,299 (+)MAPPERmRatBN7.2
Rnor_6.03173,953,407 - 173,953,528NCBIRnor6.0
Rnor_5.03183,137,671 - 183,137,792UniSTSRnor5.0
RGSC_v3.43167,508,472 - 167,508,593UniSTSRGSC3.4
Celera3167,056,612 - 167,056,733UniSTS
RH 3.4 Map31510.89UniSTS
Cytogenetic Map3q43UniSTS


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 43 4 4 4 4 8 5
Low 3 53 37 15 37 8 11 74 27 36 11 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000090468   ⟹   ENSRNOP00000068843
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3165,502,384 - 165,505,455 (-)Ensembl
Rnor_6.0 Ensembl3173,950,613 - 173,953,684 (-)Ensembl
RefSeq Acc Id: NM_001109564   ⟹   NP_001103034
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,880,087 - 185,883,158 (-)NCBI
mRatBN7.23165,502,384 - 165,505,455 (-)NCBI
Rnor_6.03173,950,613 - 173,953,684 (-)NCBI
Rnor_5.03183,137,515 - 183,140,586 (+)NCBI
RGSC_v3.43167,505,678 - 167,508,749 (-)RGD
Celera3167,056,456 - 167,059,527 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001103034 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88854 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000068843
  ENSRNOP00000068843.1
RefSeq Acc Id: NP_001103034   ⟸   NM_001109564
- UniProtKB: D3ZZ26 (UniProtKB/TrEMBL),   A6KME6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000068843   ⟸   ENSRNOT00000090468
Protein Domains
CBM21

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZZ26-F1-model_v2 AlphaFold D3ZZ26 1-279 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586306 AgrOrtholog
BioCyc Gene G2FUF-46399 BioCyc
Ensembl Genes ENSRNOG00000053869 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000090468 ENTREZGENE
  ENSRNOT00000090468.2 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.2440 UniProtKB/TrEMBL
InterPro CBM21_dom_sf UniProtKB/TrEMBL
  CBM_21 UniProtKB/TrEMBL
  Pase-1_Glycogen_target-su_met UniProtKB/TrEMBL
KEGG Report rno:689995 UniProtKB/TrEMBL
NCBI Gene 689995 ENTREZGENE
PANTHER PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT UniProtKB/TrEMBL
  PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 3D UniProtKB/TrEMBL
Pfam CBM_21 UniProtKB/TrEMBL
PhenoGen Ppp1r3d PhenoGen
PIRSF PP1_GT_animal UniProtKB/TrEMBL
PROSITE CBM21 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000053869 RatGTEx
UniProt A6KME6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZZ26 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Ppp1r3d  protein phosphatase 1, regulatory subunit 3D  LOC689995  similar to Protein phosphatase 1 regulatory subunit 3D (Protein phosphatase 1, regulatory subunit 6) (Protein phosphatase 1-binding subunit R6)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC689995  similar to Protein phosphatase 1 regulatory subunit 3D (Protein phosphatase 1, regulatory subunit 6) (Protein phosphatase 1-binding subunit R6)  LOC682185  similar to Protein phosphatase 1 regulatory subunit 3D (Protein phosphatase 1, regulatory subunit 6) (Protein phosphatase 1-binding subunit R6)  Data merged from RGD:1586905 1643240 APPROVED
2006-11-19 LOC689995  similar to Protein phosphatase 1 regulatory subunit 3D (Protein phosphatase 1, regulatory subunit 6) (Protein phosphatase 1-binding subunit R6)      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC682185  similar to Protein phosphatase 1 regulatory subunit 3D (Protein phosphatase 1, regulatory subunit 6) (Protein phosphatase 1-binding subunit R6)      Symbol and Name status set to provisional 70820 PROVISIONAL