Ptpmt1 (protein tyrosine phosphatase, mitochondrial 1) - Rat Genome Database

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Gene: Ptpmt1 (protein tyrosine phosphatase, mitochondrial 1) Rattus norvegicus
Analyze
Symbol: Ptpmt1
Name: protein tyrosine phosphatase, mitochondrial 1
RGD ID: 1589783
Description: Predicted to enable phosphatidylglycerophosphatase activity and phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity. Involved in negative regulation of insulin secretion involved in cellular response to glucose stimulus. Is integral component of mitochondrial inner membrane. Orthologous to human PTPMT1 (protein tyrosine phosphatase mitochondrial 1); PARTICIPATES IN cardiolipin biosynthetic pathway; glycerophospholipid metabolic pathway; inositol metabolic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC29390; LOC29390; phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1; Plip; protein tyrosine phosphatase, mitochondrial 1 (mapped); protein-tyrosine phosphatase mitochondrial 1; PTEN-like phosphatase; Ptpmt1_mapped
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
mRatBN7.2376,889,922 - 76,899,427 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl376,889,922 - 76,899,427 (-)Ensembl
Rnor_6.0379,734,961 - 79,743,737 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl379,734,961 - 79,743,737 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0386,444,081 - 86,452,749 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4375,269,658 - 75,279,872 (-)NCBIRGSC3.4rn4RGSC3.4
Celera376,098,941 - 76,108,482 (-)NCBICelera
Cytogenetic Map3q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, etal., Genome Res 1996 Sep;6(9):791-806.
2. Pharmacological targeting of the mitochondrial phosphatase PTPMT1. Doughty-Shenton D, etal., J Pharmacol Exp Ther. 2010 May;333(2):584-92. doi: 10.1124/jpet.109.163329. Epub 2010 Feb 18.
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. A PTEN-like phosphatase with a novel substrate specificity. Pagliarini DJ, etal., J Biol Chem 2004 Sep 10;279(37):38590-6. Epub 2004 Jul 09.
5. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
6. Dual specificity phosphatases 18 and 21 target to opposing sides of the mitochondrial inner membrane. Rardin MJ, etal., J Biol Chem. 2008 May 30;283(22):15440-50. doi: 10.1074/jbc.M709547200. Epub 2008 Apr 2.
7. Metabolism and function of mitochondrial cardiolipin. Ren M, etal., Prog Lipid Res. 2014 Jul;55:1-16. doi: 10.1016/j.plipres.2014.04.001. Epub 2014 Apr 24.
8. GOA pipeline RGD automated data pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:15057822   PMID:16039589   PMID:18614015   PMID:21630459   PMID:21641550   PMID:24709986  


Genomics

Comparative Map Data
Ptpmt1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2376,889,922 - 76,899,427 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl376,889,922 - 76,899,427 (-)Ensembl
Rnor_6.0379,734,961 - 79,743,737 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl379,734,961 - 79,743,737 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0386,444,081 - 86,452,749 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4375,269,658 - 75,279,872 (-)NCBIRGSC3.4rn4RGSC3.4
Celera376,098,941 - 76,108,482 (-)NCBICelera
Cytogenetic Map3q24NCBI
PTPMT1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381147,565,599 - 47,573,461 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1147,565,430 - 47,573,461 (+)EnsemblGRCh38hg38GRCh38
GRCh371147,587,151 - 47,595,013 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361147,543,705 - 47,549,946 (+)NCBINCBI36hg18NCBI36
Celera1147,729,717 - 47,737,744 (+)NCBI
Cytogenetic Map11p11.2NCBI
HuRef1147,287,796 - 47,295,963 (+)NCBIHuRef
CHM1_11147,586,226 - 47,594,256 (+)NCBICHM1_1
T2T-CHM13v2.01147,726,025 - 47,733,883 (+)NCBI
Ptpmt1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39290,741,057 - 90,748,395 (-)NCBIGRCm39mm39
GRCm39 Ensembl290,739,060 - 90,748,389 (-)Ensembl
GRCm38290,910,713 - 90,918,050 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl290,908,716 - 90,918,258 (-)EnsemblGRCm38mm10GRCm38
MGSCv37290,750,870 - 90,758,207 (-)NCBIGRCm37mm9NCBIm37
MGSCv36290,711,565 - 90,718,868 (-)NCBImm8
Celera292,295,185 - 92,302,523 (-)NCBICelera
Cytogenetic Map2E1NCBI
Ptpmt1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_004955422723,236 - 724,761 (-)NCBIChiLan1.0ChiLan1.0
PTPMT1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11148,064,931 - 48,071,832 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1148,064,931 - 48,073,474 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01147,515,304 - 47,521,529 (+)NCBIMhudiblu_PPA_v0panPan3
PTPMT1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11842,081,414 - 42,087,435 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1842,081,262 - 42,087,423 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1840,812,739 - 40,818,561 (-)NCBI
ROS_Cfam_1.01842,737,284 - 42,743,123 (-)NCBI
ROS_Cfam_1.0 Ensembl1842,733,781 - 42,743,317 (-)Ensembl
UMICH_Zoey_3.11842,224,513 - 42,230,365 (-)NCBI
UNSW_CanFamBas_1.01841,778,827 - 41,784,640 (-)NCBI
UU_Cfam_GSD_1.01842,508,874 - 42,514,697 (-)NCBI
Ptpmt1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494719,568,539 - 19,577,371 (-)NCBI
SpeTri2.0NW_0049365621,680,131 - 1,689,125 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTPMT1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl215,043,613 - 15,052,831 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1215,044,432 - 15,052,815 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2216,220,995 - 16,226,534 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTPMT1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1117,747,371 - 17,754,358 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl117,747,380 - 17,754,161 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666038115,038,876 - 115,047,033 (-)NCBIVero_WHO_p1.0
Ptpmt1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247671,248,608 - 1,253,262 (-)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247671,248,638 - 1,253,255 (-)NCBIHetGla_female_1.0hetGla2

Position Markers
AA963126  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2376,889,976 - 76,890,188 (+)MAPPERmRatBN7.2
Rnor_6.0379,735,016 - 79,735,227NCBIRnor6.0
Rnor_5.0386,444,136 - 86,444,347UniSTSRnor5.0
RGSC_v3.4375,269,713 - 75,269,924UniSTSRGSC3.4
Celera376,098,996 - 76,099,207UniSTS
Cytogenetic Map3q24UniSTS
RH144148  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2376,893,901 - 76,894,022 (+)MAPPERmRatBN7.2
Rnor_6.0379,738,939 - 79,739,059NCBIRnor6.0
Rnor_5.0386,448,059 - 86,448,179UniSTSRnor5.0
RGSC_v3.4375,274,666 - 75,274,786UniSTSRGSC3.4
Celera376,103,021 - 76,103,141UniSTS
Cytogenetic Map3q24UniSTS
BG378525  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2376,889,954 - 76,890,114 (+)MAPPERmRatBN7.2
Rnor_6.0379,734,994 - 79,735,153NCBIRnor6.0
Rnor_5.0386,444,114 - 86,444,273UniSTSRnor5.0
RGSC_v3.4375,269,691 - 75,269,850UniSTSRGSC3.4
Celera376,098,974 - 76,099,133UniSTS
RH 3.4 Map7811.2UniSTS
Cytogenetic Map3q24UniSTS
UniSTS:495313  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2376,898,951 - 76,899,885 (+)MAPPERmRatBN7.2
Rnor_6.0379,743,262 - 79,744,195NCBIRnor6.0
Rnor_5.0386,452,274 - 86,453,207UniSTSRnor5.0
RGSC_v3.4375,279,397 - 75,280,330UniSTSRGSC3.4
Celera376,108,007 - 76,108,940UniSTS
Cytogenetic Map3q24UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33370334778196190Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)33851780383517803Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)33945463789115240Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)33945463789115240Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34382736490905114Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
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
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35318469289878207Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35378111291609953Rat
1581568Rf53Renal function QTL 53total urine protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)36113434889115068Rat
1582210Bw71Body weight QTL 713.30.0012body mass (VT:0001259)body weight (CMO:0000012)364655305115665732Rat
1582221Kidm30Kidney mass QTL 303.50.0008kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)364655305115665732Rat
12879848Bw181Body weght QTL 1810.015body mass (VT:0001259)body weight (CMO:0000012)370348525121056321Rat
2301414Kidm37Kidney mass QTL 370.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)370653097121056321Rat
1600376Arunc5Aerobic running capacity QTL 50.21exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)373376539118376539Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:259
Count of miRNA genes:174
Interacting mature miRNAs:200
Transcripts:ENSRNOT00000013584
Prediction methods:Microtar, 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.


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 35 43 33 7 33 6 9 74 35 41 11 6
Low 8 14 8 12 8 2 2 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000013584   ⟹   ENSRNOP00000013584
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl376,889,922 - 76,899,427 (-)Ensembl
Rnor_6.0 Ensembl379,734,961 - 79,743,737 (-)Ensembl
RefSeq Acc Id: NM_001105726   ⟹   NP_001099196
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2376,889,922 - 76,899,427 (-)NCBI
Rnor_6.0379,734,961 - 79,743,737 (-)NCBI
Rnor_5.0386,444,081 - 86,452,749 (-)NCBI
RGSC_v3.4375,269,658 - 75,279,872 (-)RGD
Celera376,098,941 - 76,108,482 (-)RGD
Sequence:
RefSeq Acc Id: XM_039104436   ⟹   XP_038960364
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2376,889,924 - 76,899,097 (-)NCBI
RefSeq Acc Id: XM_039104437   ⟹   XP_038960365
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2376,889,924 - 76,899,321 (-)NCBI
RefSeq Acc Id: XM_039104438   ⟹   XP_038960366
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2376,894,294 - 76,899,104 (-)NCBI
RefSeq Acc Id: XM_039104439   ⟹   XP_038960367
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2376,894,252 - 76,899,378 (-)NCBI
RefSeq Acc Id: XR_005501801
RefSeq Status:
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2376,889,924 - 76,899,106 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_001099196   ⟸   NM_001105726
- UniProtKB: G3V7B6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000013584   ⟸   ENSRNOT00000013584
RefSeq Acc Id: XP_038960365   ⟸   XM_039104437
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038960364   ⟸   XM_039104436
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038960367   ⟸   XM_039104439
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038960366   ⟸   XM_039104438
- Peptide Label: isoform X3
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P0C089-F1-model_v2 AlphaFold P0C089 1-193 view protein structure

Transcriptome

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

Promoters
RGD ID:13692202
Promoter ID:EPDNEW_R2727
Type:initiation region
Name:Ptpmt1_1
Description:protein tyrosine phosphatase, mitochondrial 1
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_6.0379,743,344 - 79,743,404EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589783 AgrOrtholog
BioCyc Gene G2FUF-48757 BioCyc
BioCyc Pathway PWY-5269 [cardiolipin biosynthesis II] BioCyc
  PWY4FS-8 [phosphatidylglycerol biosynthesis II (non-plastidic)] BioCyc
Ensembl Genes ENSRNOG00000009723 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000013584 ENTREZGENE
  ENSRNOP00000013584.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000013584 ENTREZGENE
  ENSRNOT00000013584.6 UniProtKB/TrEMBL
Gene3D-CATH 3.90.190.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Dual-sp_phosphatase_cat-dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Prot-tyrosine_phosphatase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTPMT1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTPMT1-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tyr_Pase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_DUAL_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29390 UniProtKB/TrEMBL
NCBI Gene 29390 ENTREZGENE
PANTHER PTHR46712 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam DSPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ptpmt1 PhenoGen
PROSITE TYR_PHOSPHATASE_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TYR_PHOSPHATASE_DUAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART DSPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF52799 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3V7B6 ENTREZGENE, UniProtKB/TrEMBL
  P0C089 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2007-04-13 Ptpmt1  protein tyrosine phosphatase, mitochondrial 1  Ptpmt1_mapped  protein tyrosine phosphatase, mitochondrial 1 (mapped)  Data Merged 737654 APPROVED
2006-11-20 Ptpmt1_mapped  protein tyrosine phosphatase, mitochondrial 1(mapped)  Ptpmt1  protein tyrosine phosphatase, mitochondrial 1  Symbol set to symbol_mapped, name set to name (mapped) 1582166 APPROVED
2006-11-20 Ptpmt1  protein tyrosine phosphatase, mitochondrial 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-30 Ptpmt1  protein tyrosine phosphatase, mitochondrial 1  Plip  PTEN-like phosphatase  Symbol and Name updated 1299863 APPROVED
2005-07-08 Plip  PTEN-like phosphatase  LOC29390  hypothetical protein LOC29390  Symbol and Name updated 1299863 APPROVED