Ppm1f (protein phosphatase, Mg2+/Mn2+ dependent, 1F) - Rat Genome Database

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Gene: Ppm1f (protein phosphatase, Mg2+/Mn2+ dependent, 1F) Rattus norvegicus
Analyze
Symbol: Ppm1f
Name: protein phosphatase, Mg2+/Mn2+ dependent, 1F
RGD ID: 631363
Description: Enables protein serine/threonine phosphatase activity. Involved in positive regulation of cysteine-type endopeptidase activity involved in apoptotic process and protein dephosphorylation. Located in cytosol and perinuclear region of cytoplasm. Orthologous to human PPM1F (protein phosphatase, Mg2+/Mn2+ dependent 1F); PARTICIPATES IN adenosine monophosphate-activated protein kinase (AMPK) signaling pathway; calcium/calmodulin dependent kinase 2 signaling pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ca(2+)/calmodulin-dependent protein kinase phosphatase; calcium/calmodulin-dependent protein kinase phosphatase; CaM-kinase phosphatase; CaMKPase; partner of PIX 2; protein phosphatase 1F; protein phosphatase 1F (PP2C domain containing)
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
mRatBN7.21184,064,422 - 84,094,410 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1184,064,420 - 84,094,340 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1192,790,922 - 92,818,479 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01185,452,053 - 85,479,612 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01184,505,643 - 84,533,204 (-)NCBIRnor_WKY
Rnor_6.01188,313,709 - 88,343,726 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,313,709 - 88,343,627 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,368,795 - 91,398,731 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41186,086,968 - 86,114,278 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11186,127,564 - 86,154,875 (-)NCBI
Celera1182,821,775 - 82,848,989 (-)NCBICelera
Cytogenetic Map11q23NCBI
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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Negative regulation of multifunctional Ca2+/calmodulin-dependent protein kinases: physiological and pharmacological significance of protein phosphatases. Ishida A, etal., Br J Pharmacol. 2008 Jun;154(4):729-40. doi: 10.1038/bjp.2008.127. Epub 2008 May 5.
3. Phosphorylation and activation of Ca2+/calmodulin-dependent protein kinase phosphatase by Ca2+/calmodulin-dependent protein kinase II. Kameshita I, etal., FEBS Lett. 1999 Aug 6;456(2):249-52.
4. Molecular cloning of Ca2+/calmodulin-dependent protein kinase phosphatase. Kitani T, etal., J Biochem (Tokyo) 1999 Jun;125(6):1022-8.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Mutational analysis of Ca(2+)/calmodulin-dependent protein kinase phosphatase (CaMKP). Tada Y, etal., Arch Biochem Biophys. 2006 Aug 15;452(2):174-85. Epub 2006 Jun 21.
9. The Caenorhabditis elegans sex-determining protein FEM-2 and its human homologue, hFEM-2, are Ca2+/calmodulin-dependent protein kinase phosphatases that promote apoptosis. Tan KM, etal., J Biol Chem. 2001 Nov 23;276(47):44193-202. Epub 2001 Sep 14.
10. Ppm1E is an in cellulo AMP-activated protein kinase phosphatase. Voss M, etal., Cell Signal. 2011 Jan;23(1):114-24. doi: 10.1016/j.cellsig.2010.08.010. Epub 2010 Aug 27.
Additional References at PubMed
PMID:11864573   PMID:12477932   PMID:15140879   PMID:20016286   PMID:23991411   PMID:24338362   PMID:26498692  


Genomics

Comparative Map Data
Ppm1f
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21184,064,422 - 84,094,410 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1184,064,420 - 84,094,340 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1192,790,922 - 92,818,479 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01185,452,053 - 85,479,612 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01184,505,643 - 84,533,204 (-)NCBIRnor_WKY
Rnor_6.01188,313,709 - 88,343,726 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1188,313,709 - 88,343,627 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01191,368,795 - 91,398,731 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41186,086,968 - 86,114,278 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11186,127,564 - 86,154,875 (-)NCBI
Celera1182,821,775 - 82,848,989 (-)NCBICelera
Cytogenetic Map11q23NCBI
PPM1F
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382221,919,425 - 21,952,848 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2221,919,425 - 21,952,848 (-)EnsemblGRCh38hg38GRCh38
GRCh372222,273,798 - 22,307,220 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362220,603,793 - 20,637,217 (-)NCBINCBI36Build 36hg18NCBI36
Build 342220,598,346 - 20,631,771NCBI
Celera226,091,333 - 6,124,791 (-)NCBICelera
Cytogenetic Map22q11.22NCBI
HuRef225,230,870 - 5,264,327 (-)NCBIHuRef
CHM1_12222,273,889 - 22,307,348 (-)NCBICHM1_1
T2T-CHM13v2.02222,332,962 - 22,366,379 (-)NCBIT2T-CHM13v2.0
Ppm1f
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391616,714,314 - 16,745,239 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1616,714,333 - 16,745,228 (+)EnsemblGRCm39 Ensembl
GRCm381616,896,469 - 16,927,375 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1616,896,469 - 16,927,364 (+)EnsemblGRCm38mm10GRCm38
MGSCv371616,903,414 - 16,927,455 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361616,816,884 - 16,840,925 (+)NCBIMGSCv36mm8
Celera1617,475,388 - 17,499,499 (+)NCBICelera
Cytogenetic Map16A3NCBI
Ppm1f
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544217,227,723 - 17,252,383 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544217,233,258 - 17,256,009 (+)NCBIChiLan1.0ChiLan1.0
PPM1F
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12220,520,022 - 20,553,128 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2220,520,022 - 20,553,128 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0224,039,032 - 4,072,165 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PPM1F
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12631,162,810 - 31,193,586 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2631,166,593 - 31,193,587 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2631,118,870 - 31,149,720 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02632,568,771 - 32,599,639 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2632,568,771 - 32,599,645 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12630,617,044 - 30,647,882 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02630,241,110 - 30,271,944 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02631,331,626 - 31,362,486 (-)NCBIUU_Cfam_GSD_1.0
Ppm1f
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118140,937,979 - 140,967,888 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366191,786,178 - 1,816,109 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366191,786,223 - 1,816,083 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PPM1F
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1450,040,663 - 50,063,325 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11450,040,612 - 50,083,047 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21453,483,164 - 53,505,869 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PPM1F
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1194,167,925 - 4,200,550 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl194,167,908 - 4,200,953 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660852,802,752 - 2,835,380 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ppm1f
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247471,420,835 - 1,446,143 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247471,417,004 - 1,446,211 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ppm1f
187 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:62
Count of miRNA genes:60
Interacting mature miRNAs:60
Transcripts:ENSRNOT00000002530
Prediction methods:Miranda, Rnahybrid
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
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
724561Plsm4Polydactyly-luxate syndrome (PLS) morphotypes QTL 40.0003forelimb integrity trait (VT:0010562)front foot phalanges count (CMO:0001947)115445753486241447Rat
7411658Foco27Food consumption QTL 2716.20.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)115635142486241447Rat
10058954Gmadr7Adrenal mass QTL 72.490.0049adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)116034659086241447Rat
634339Niddm50Non-insulin dependent diabetes mellitus QTL 503.32blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)116642214886241447Rat
1354593Stl12Serum triglyceride level QTL 123.36blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)116642214886241447Rat

Markers in Region
RH129096  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21184,064,432 - 84,064,621 (+)MAPPERmRatBN7.2
Rnor_6.01188,313,722 - 88,313,910NCBIRnor6.0
Rnor_5.01191,368,806 - 91,368,994UniSTSRnor5.0
RGSC_v3.41186,084,339 - 86,084,527UniSTSRGSC3.4
Celera1182,819,146 - 82,819,334UniSTS
Cytogenetic Map11q23UniSTS
BF400290  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21184,068,434 - 84,068,629 (+)MAPPERmRatBN7.2
Rnor_6.01188,317,724 - 88,317,918NCBIRnor6.0
Rnor_5.01191,372,808 - 91,373,002UniSTSRnor5.0
RGSC_v3.41186,088,341 - 86,088,535UniSTSRGSC3.4
Celera1182,823,148 - 82,823,342UniSTS
RH 3.4 Map2858.8UniSTS
Cytogenetic Map11q23UniSTS
BF403121  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21184,068,433 - 84,068,629 (+)MAPPERmRatBN7.2
Rnor_6.01188,317,723 - 88,317,918NCBIRnor6.0
Rnor_5.01191,372,807 - 91,373,002UniSTSRnor5.0
RGSC_v3.41186,088,340 - 86,088,535UniSTSRGSC3.4
Celera1182,823,147 - 82,823,342UniSTS
RH 3.4 Map11652.9UniSTS
Cytogenetic Map11q23UniSTS


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 1 43 35 19 19 19 4 6 74 35 34 11 4
Low 2 22 22 22 4 5 7 4
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000002530   ⟹   ENSRNOP00000002530
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1184,064,420 - 84,094,340 (-)Ensembl
Rnor_6.0 Ensembl1188,313,709 - 88,343,627 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000112083   ⟹   ENSRNOP00000084851
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1184,064,420 - 84,080,034 (-)Ensembl
RefSeq Acc Id: NM_175755   ⟹   NP_786931
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21184,067,062 - 84,094,360 (-)NCBI
Rnor_6.01188,316,351 - 88,343,647 (-)NCBI
Rnor_5.01191,368,795 - 91,398,731 (-)NCBI
RGSC_v3.41186,086,968 - 86,114,278 (-)RGD
Celera1182,821,775 - 82,848,989 (-)RGD
Sequence:
RefSeq Acc Id: XM_006248674   ⟹   XP_006248736
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21184,064,422 - 84,094,348 (-)NCBI
Rnor_6.01188,313,709 - 88,343,627 (-)NCBI
Rnor_5.01191,368,795 - 91,398,731 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039088064   ⟹   XP_038943992
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21184,064,422 - 84,094,410 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_786931   ⟸   NM_175755
- UniProtKB: Q9WVR7 (UniProtKB/Swiss-Prot),   B2RYP5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006248736   ⟸   XM_006248674
- Peptide Label: isoform X1
- UniProtKB: Q9WVR7 (UniProtKB/Swiss-Prot),   B2RYP5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000002530   ⟸   ENSRNOT00000002530
RefSeq Acc Id: XP_038943992   ⟸   XM_039088064
- Peptide Label: isoform X1
- UniProtKB: Q9WVR7 (UniProtKB/Swiss-Prot),   B2RYP5 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000084851   ⟸   ENSRNOT00000112083
Protein Domains
PPM-type phosphatase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WVR7-F1-model_v2 AlphaFold Q9WVR7 1-450 view protein structure

Transcriptome

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

Promoters
RGD ID:13698340
Promoter ID:EPDNEW_R8865
Type:multiple initiation site
Name:Ppm1f_1
Description:protein phosphatase, Mg2+/Mn2+ dependent, 1F
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_6.01188,343,665 - 88,343,725EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:631363 AgrOrtholog
BioCyc Gene G2FUF-20564 BioCyc
Ensembl Genes ENSRNOG00000037909 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000002530 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000084851 ENTREZGENE
  ENSRNOP00000084851.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002530 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000112083 ENTREZGENE
  ENSRNOT00000112083.1 UniProtKB/TrEMBL
Gene3D-CATH 3.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9098491 IMAGE-MGC_LOAD
InterPro PP2C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PP2C_BS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PPM-type_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PPM-type_phosphatase_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:287931 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:188760 IMAGE-MGC_LOAD
NCBI Gene 287931 ENTREZGENE
PANTHER PTHR13832 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PP2C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ppm1f PhenoGen
PROSITE PPM_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PPM_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART PP2C_SIG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PP2Cc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF81606 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6A062_RAT UniProtKB/TrEMBL
  B2RYP5 ENTREZGENE, UniProtKB/TrEMBL
  PPM1F_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-02 Ppm1f  protein phosphatase, Mg2+/Mn2+ dependent, 1F  Ppm1f  protein phosphatase 1F (PP2C domain containing)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 Ppm1f  protein phosphatase 1F (PP2C domain containing)  CaMKPase  calcium/calmodulin-dependent protein kinase phosphatase  Symbol and Name updated to reflect Human and Mouse nomenclature 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to cytoplasm 632383
gene_protein 450 amino acids 632383