Ppm1d (protein phosphatase, Mg2+/Mn2+ dependent, 1D) - Rat Genome Database

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Gene: Ppm1d (protein phosphatase, Mg2+/Mn2+ dependent, 1D) Rattus norvegicus
Analyze
Symbol: Ppm1d
Name: protein phosphatase, Mg2+/Mn2+ dependent, 1D
RGD ID: 1305460
Description: Predicted to enable mitogen-activated protein kinase binding activity and protein serine/threonine phosphatase activity. Involved in cellular response to starvation. Predicted to be located in nucleolus and nucleoplasm. Predicted to be active in cytosol and nucleus. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human PPM1D (protein phosphatase, Mg2+/Mn2+ dependent 1D); PARTICIPATES IN ataxia telangiectasia-mutated (ATM) signaling pathway; p38 MAPK signaling pathway; p53 signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; decabromodiphenyl ether.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC287585; p53-induced protein phosphatase 1; protein phosphatase 1D; protein phosphatase 1D magnesium-dependent, delta isoform; Wip1
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
mRatBN7.21070,172,603 - 70,208,607 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1070,172,603 - 70,208,607 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1074,792,598 - 74,828,600 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01074,297,380 - 74,333,379 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01069,762,046 - 69,798,046 (+)NCBIRnor_WKY
Rnor_6.01072,909,550 - 72,945,884 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1072,909,550 - 72,945,884 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01072,813,803 - 72,849,854 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41073,575,506 - 73,612,063 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11073,553,678 - 73,626,442 (+)NCBI
Celera1069,098,036 - 69,134,596 (+)NCBICelera
Cytogenetic Map10q26NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-demecolcine  (ISO)
(S)-colchicine  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
17beta-hydroxy-5alpha-androstan-3-one  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3-methylcholanthrene  (ISO)
4-nitrophenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
7,12-dimethyltetraphene  (ISO)
adefovir pivoxil  (ISO)
adenine  (ISO)
afimoxifene  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenous acid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
cadmium sulfate  (ISO)
caffeine  (ISO)
captan  (ISO)
chlordecone  (ISO)
chloroacetaldehyde  (ISO)
choline  (ISO)
cisplatin  (ISO)
clodronic acid  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumarin  (ISO)
crocidolite asbestos  (ISO)
decabromodiphenyl ether  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
diazinon  (EXP)
dibenzo[a,l]pyrene  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
emodin  (ISO)
epoxiconazole  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
fenofibrate  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
furan  (EXP)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
hydroquinone  (ISO)
hydroxyurea  (ISO)
ifosfamide  (ISO)
indometacin  (ISO)
irinotecan  (ISO)
L-methionine  (ISO)
manganese atom  (EXP)
manganese(0)  (EXP)
menadione  (ISO)
mercury dibromide  (ISO)
metformin  (ISO)
methamphetamine  (EXP)
methyl methanesulfonate  (ISO)
N-Nitrosopyrrolidine  (ISO)
nitric oxide  (ISO)
ochratoxin A  (EXP,ISO)
oxaliplatin  (EXP)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (EXP,ISO)
pentanal  (ISO)
phenol  (ISO)
phenylmercury acetate  (ISO)
potassium bromate  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (EXP,ISO)
rotenone  (ISO)
SB 431542  (ISO)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
trichloroethene  (EXP)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
valproic acid  (ISO)
wortmannin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cellular_component  (ND)
cytosol  (IBA,ISO)
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. ATM protein kinase: the linchpin of cellular defenses to stress. Bhatti S, etal., Cell Mol Life Sci. 2011 Sep;68(18):2977-3006. doi: 10.1007/s00018-011-0683-9. Epub 2011 May 2.
2. Mechanisms and functions of p38 MAPK signalling. Cuadrado A and Nebreda AR, Biochem J. 2010 Aug 1;429(3):403-17. doi: 10.1042/BJ20100323.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. Oncogenic properties of PPM1D located within a breast cancer amplification epicenter at 17q23. Li J, etal., Nat Genet. 2002 Jun;31(2):133-4. Epub 2002 May 20.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
8. Push back to respond better: regulatory inhibition of the DNA double-strand break response. Panier S and Durocher D, Nat Rev Mol Cell Biol. 2013 Oct;14(10):661-72. doi: 10.1038/nrm3659. Epub 2013 Sep 4.
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
11. GOA pipeline RGD automated data pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Comprehensive gene review and curation RGD comprehensive gene curation
15. Global identification of genes related to nutrient deficiency in intervertebral disc cells in an experimental nutrient deprivation model. Sudo H, etal., PLoS One. 2013;8(3):e58806. doi: 10.1371/journal.pone.0058806. Epub 2013 Mar 8.
Additional References at PubMed
PMID:11809801   PMID:12477932   PMID:20801214   PMID:21283629   PMID:21522133   PMID:23242139   PMID:24135283   PMID:25791630   PMID:27207279   PMID:28343630   PMID:28780681   PMID:33417178  


Genomics

Comparative Map Data
Ppm1d
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21070,172,603 - 70,208,607 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1070,172,603 - 70,208,607 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1074,792,598 - 74,828,600 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01074,297,380 - 74,333,379 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01069,762,046 - 69,798,046 (+)NCBIRnor_WKY
Rnor_6.01072,909,550 - 72,945,884 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1072,909,550 - 72,945,884 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01072,813,803 - 72,849,854 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41073,575,506 - 73,612,063 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11073,553,678 - 73,626,442 (+)NCBI
Celera1069,098,036 - 69,134,596 (+)NCBICelera
Cytogenetic Map10q26NCBI
PPM1D
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381760,600,193 - 60,666,280 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1760,600,193 - 60,666,280 (+)EnsemblGRCh38hg38GRCh38
GRCh371758,677,554 - 58,743,641 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361756,032,336 - 56,096,818 (+)NCBINCBI36Build 36hg18NCBI36
Build 341756,032,335 - 56,096,818NCBI
Celera1757,778,184 - 57,842,819 (+)NCBICelera
Cytogenetic Map17q23.2NCBI
HuRef1754,048,263 - 54,112,992 (+)NCBIHuRef
CHM1_11758,742,292 - 58,808,407 (+)NCBICHM1_1
T2T-CHM13v2.01761,468,992 - 61,535,104 (+)NCBIT2T-CHM13v2.0
Ppm1d
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391185,202,080 - 85,237,897 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1185,202,070 - 85,237,892 (+)EnsemblGRCm39 Ensembl
GRCm381185,311,254 - 85,347,071 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1185,311,244 - 85,347,066 (+)EnsemblGRCm38mm10GRCm38
MGSCv371185,124,756 - 85,160,573 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361185,127,449 - 85,163,261 (+)NCBIMGSCv36mm8
Celera1194,934,381 - 94,968,789 (+)NCBICelera
Cytogenetic Map11CNCBI
cM Map1151.34NCBI
Ppm1d
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554511,878,629 - 1,915,654 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554511,878,110 - 1,915,794 (+)NCBIChiLan1.0ChiLan1.0
PPM1D
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11759,824,566 - 59,887,015 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1759,824,566 - 59,887,015 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01754,698,338 - 54,761,889 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PPM1D
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1935,856,277 - 35,914,096 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl935,856,765 - 35,913,884 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha935,084,747 - 35,142,645 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0936,667,436 - 36,726,625 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl936,667,317 - 36,726,614 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1935,448,412 - 35,507,509 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0935,733,433 - 35,792,671 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0935,822,118 - 35,881,823 (-)NCBIUU_Cfam_GSD_1.0
Ppm1d
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560234,890,495 - 34,935,847 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364902,139,078 - 2,184,602 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049364902,139,201 - 2,183,850 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPM1D
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1237,485,588 - 37,536,146 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11237,485,601 - 37,536,159 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21238,911,008 - 38,934,995 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PPM1D
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11631,833,145 - 31,900,962 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1631,833,160 - 31,900,963 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660772,575,481 - 2,643,559 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ppm1d
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248713,044,102 - 3,088,981 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248713,044,718 - 3,089,042 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ppm1d
169 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:137
Count of miRNA genes:95
Interacting mature miRNAs:125
Transcripts:ENSRNOT00000004540
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
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)101981604299406971Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102242750090627625Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023444813104060283Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102652195798003205Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102652195798952741Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102694462871944628Rat
10402859Bp381Blood pressure QTL 3810.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
2292441Bp308Blood pressure QTL 308arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102760646872606468Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102845313673453136Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1029299504107211142Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)103063205375632053Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103122402675632053Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103129743976297439Rat
1576319Cia29Collagen induced arthritis QTL 29joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103397392178973921Rat
2317042Aia20Adjuvant induced arthritis QTL 203.38joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)103756507982565079Rat
2317043Aia7Adjuvant induced arthritis QTL 73.82joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)103756507982565079Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040035094102359817Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040035094104060283Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)104114263386142633Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104133325886333258Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104194452678307017Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042045676104670812Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)14232313287323132Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14232313287323132Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104232313287323132Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)104287676679813922Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104444169989441699Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104444169989441699Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104444169989441699Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104502965095600334Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104736947092369470Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)cortical volumetric bone mineral density (CMO:0001730)104944455181709989Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104944455181709989Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)104944455181709989Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)104944455181709989Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105057470795574707Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105112110096121100Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1051770177107211142Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1051770177107211142Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)105177294096772940Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105177461295600334Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105178628291669536Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1053797385107211142Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105379749498952626Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105480929299809292Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1057134272102134272Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1057134272102134272Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1057134272102134272Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1057576521102576521Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1059209888104209888Rat
70363Bp71Blood pressure QTL 710.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)106134527681714865Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)106134527698211570Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)106134527699703528Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)106134527699703528Rat
61402Niddm3Non-insulin dependent diabetes mellitus QTL 34.58blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)106134541382564856Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1062057807107057807Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1062057807107057807Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1063221094107211142Rat
2298481Eau9Experimental allergic uveoretinitis QTL 90.0169uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)106592723382565079Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106674365598003205Rat
631565Hcuc4Hepatic copper content QTL 44.15liver copper amount (VT:0003065)liver copper weight to liver dry weight ratio (CMO:0001512)106694181373452992Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1066978955107211142Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1066978955107211142Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)106750210873579767Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1067750049107211142Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068383129107211142Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1068420376107211142Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1069738412107211142Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1069738412107211142Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1069738412107211142Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1070199100107211142Rat

Markers in Region
D10Chm138  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21070,193,411 - 70,193,658 (+)MAPPERmRatBN7.2
Rnor_6.01072,930,356 - 72,930,606NCBIRnor6.0
Rnor_5.01072,834,326 - 72,834,576UniSTSRnor5.0
RGSC_v3.41073,596,411 - 73,596,657UniSTSRGSC3.4
Celera1069,119,463 - 69,119,676UniSTS
Cytogenetic Map10q26UniSTS
RH136813  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21070,207,552 - 70,207,760 (+)MAPPERmRatBN7.2
Rnor_6.01072,944,830 - 72,945,037NCBIRnor6.0
Rnor_5.01072,848,800 - 72,849,007UniSTSRnor5.0
RGSC_v3.41073,611,010 - 73,611,217UniSTSRGSC3.4
Celera1069,133,542 - 69,133,749UniSTS
Cytogenetic Map10q26UniSTS


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 26 28 20 17 20 74 24 41 10
Low 17 29 21 2 21 8 11 11 1 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000004540   ⟹   ENSRNOP00000004540
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1070,172,603 - 70,208,607 (+)Ensembl
Rnor_6.0 Ensembl1072,909,550 - 72,945,884 (+)Ensembl
RefSeq Acc Id: NM_001105825   ⟹   NP_001099295
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21070,172,603 - 70,208,607 (+)NCBI
Rnor_6.01072,909,550 - 72,945,884 (+)NCBI
Rnor_5.01072,813,803 - 72,849,854 (+)NCBI
RGSC_v3.41073,575,506 - 73,612,063 (+)RGD
Celera1069,098,036 - 69,134,596 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099295 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI62058 (Get FASTA)   NCBI Sequence Viewer  
  EDM05543 (Get FASTA)   NCBI Sequence Viewer  
  EDM05544 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099295   ⟸   NM_001105825
- UniProtKB: B1WCA0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004540   ⟸   ENSRNOT00000004540
Protein Domains
PPM-type phosphatase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B1WCA0-F1-model_v2 AlphaFold B1WCA0 1-598 view protein structure

Transcriptome

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

Promoters
RGD ID:13697559
Promoter ID:EPDNEW_R8084
Type:multiple initiation site
Name:Ppm1d_1
Description:protein phosphatase, Mg2+/Mn2+ dependent, 1D
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_6.01072,909,542 - 72,909,602EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305460 AgrOrtholog
BioCyc Gene G2FUF-23821 BioCyc
Ensembl Genes ENSRNOG00000003329 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000004540 ENTREZGENE
  ENSRNOP00000004540.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000004540 ENTREZGENE
  ENSRNOT00000004540.7 UniProtKB/TrEMBL
Gene3D-CATH 3.60.40.10 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7115026 IMAGE-MGC_LOAD
InterPro PP2C-related UniProtKB/TrEMBL
  PP2C_Mn2_Asp60_BS UniProtKB/TrEMBL
  PPM-type_dom_sf UniProtKB/TrEMBL
KEGG Report rno:287585 UniProtKB/TrEMBL
MGC_CLONE MGC:188052 IMAGE-MGC_LOAD
NCBI Gene 287585 ENTREZGENE
Pfam PP2C UniProtKB/TrEMBL
PhenoGen Ppm1d PhenoGen
PROSITE PP2C UniProtKB/TrEMBL
  PPM_2 UniProtKB/TrEMBL
SMART PP2Cc UniProtKB/TrEMBL
Superfamily-SCOP PP2C-related UniProtKB/TrEMBL
UniProt B1WCA0 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-02 Ppm1d  protein phosphatase, Mg2+/Mn2+ dependent, 1D  Ppm1d  protein phosphatase 1D magnesium-dependent, delta isoform  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ppm1d  protein phosphatase 1D magnesium-dependent, delta isoform   Ppm1d_predicted  protein phosphatase 1D magnesium-dependent, delta isoform (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Ppm1d_predicted  protein phosphatase 1D magnesium-dependent, delta isoform (predicted)      Symbol and Name status set to approved 70820 APPROVED