Ptpn13 (protein tyrosine phosphatase, non-receptor type 13) - Rat Genome Database

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Gene: Ptpn13 (protein tyrosine phosphatase, non-receptor type 13) Rattus norvegicus
Analyze
Symbol: Ptpn13
Name: protein tyrosine phosphatase, non-receptor type 13
RGD ID: 1563360
Description: Predicted to enable phosphatidylinositol 3-kinase regulatory subunit binding activity and protein tyrosine phosphatase activity. Involved in cellular response to toxic substance; negative regulation of excitatory synapse assembly; and negative regulation of protein phosphorylation. Located in cell body. Biomarker of transient cerebral ischemia. Human ortholog(s) of this gene implicated in breast cancer; carcinoma (multiple); and colorectal cancer (multiple). Orthologous to human PTPN13 (protein tyrosine phosphatase non-receptor type 13); PARTICIPATES IN ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC100910240; LOC498331; protein Tyr phosphatase; ptp; Ptp-bl; similar to protein Tyr phosphatase; tyrosine-protein phosphatase non-receptor type 13; tyrosine-protein phosphatase non-receptor type 13-like
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
GRCr8146,412,841 - 6,587,238 (-)NCBIGRCr8
mRatBN7.2146,108,202 - 6,282,619 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl146,108,211 - 6,282,563 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx146,075,850 - 6,250,132 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0147,376,101 - 7,550,395 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0146,075,567 - 6,251,306 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0147,688,551 - 7,863,664 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl147,688,551 - 7,863,664 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0147,662,574 - 7,837,443 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4147,298,209 - 7,433,464 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera146,247,030 - 6,421,249 (-)NCBICelera
Cytogenetic Map14p22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(-)-epigallocatechin 3-gallate  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
4-nitrophenol  (ISO)
7,12-dimethyltetraphene  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
atrazine  (EXP)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
capecitabine  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cobalt dichloride  (EXP)
copper atom  (ISO)
copper(0)  (ISO)
crocidolite asbestos  (ISO)
CU-O LINKAGE  (ISO)
curcumin  (ISO)
diarsenic trioxide  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxifluridine  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
fenamidone  (ISO)
folic acid  (ISO)
fonofos  (ISO)
formaldehyde  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
glycidyl methacrylate  (ISO)
irinotecan  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
LY 117018  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
N,N-diethyl-m-toluamide  (EXP)
nitrofen  (EXP)
p-menthan-3-ol  (ISO)
paclitaxel  (ISO)
parathion  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
potassium chromate  (ISO)
potassium dichromate  (ISO)
rac-lactic acid  (ISO)
raloxifene  (ISO)
retinyl acetate  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sodium arsenate  (ISO)
sunitinib  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
terbufos  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vincristine  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cell body  (IDA)
cytoplasm  (IBA,ISO)
cytoskeleton  (IEA)
cytosol  (IEA,ISO)
fibrillar center  (IEA,ISO)
lamellipodium  (ISO)
midbody  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)
plasma membrane  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Expression and localization of Fas-associated proteins following focal cerebral ischemia in rats. Bi FF, etal., Brain Res. 2008 Jan 29;1191:30-8. Epub 2007 Nov 12.
2. Expression of Fas system-related genes in the testis during development and after toxicant exposure. Boekelheide K, etal., Toxicol Lett. 1998 Dec 28;102-103:503-8. doi: 10.1016/s0378-4274(98)00242-2.
3. The expression patterns and the diagnostic/prognostic roles of PTPN family members in digestive tract cancers. Chen J, etal., Cancer Cell Int. 2020 Jun 12;20:238. doi: 10.1186/s12935-020-01315-7. eCollection 2020.
4. 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.
5. The role of PTPN13 in invasion and metastasis of lung squamous cell carcinoma. Han X, etal., Exp Mol Pathol. 2013 Dec;95(3):270-5. doi: 10.1016/j.yexmp.2013.07.008. Epub 2013 Jul 29.
6. Inhibition of Fas associated phosphatase 1 (Fap1) facilitates apoptosis of colon cancer stem cells and enhances the effects of oxaliplatin. Huang W, etal., Oncotarget. 2018 May 25;9(40):25891-25902. doi: 10.18632/oncotarget.25401. eCollection 2018 May 25.
7. Cancer Associated Fibroblasts in Stage I-IIIA NSCLC: Prognostic Impact and Their Correlations with Tumor Molecular Markers. Kilvaer TK, etal., PLoS One. 2015 Aug 7;10(8):e0134965. doi: 10.1371/journal.pone.0134965. eCollection 2015.
8. Tissue analyses reveal a potential immune-adjuvant function of FAP-1 positive fibroblasts in non-small cell lung cancer. Kilvaer TK, etal., PLoS One. 2018 Feb 7;13(2):e0192157. doi: 10.1371/journal.pone.0192157. eCollection 2018.
9. Immunohistochemical localization of FAP-1, an inhibitor of Fas-mediated apoptosis, in normal and neoplastic human tissues. Lee SH, etal., APMIS. 1999 Dec;107(12):1101-8. doi: 10.1111/j.1699-0463.1999.tb01515.x.
10. Missense polymorphisms of PTPRJ and PTPN13 genes affect susceptibility to a variety of human cancers. Mita Y, etal., J Cancer Res Clin Oncol. 2010 Feb;136(2):249-59. doi: 10.1007/s00432-009-0656-7. Epub 2009 Aug 12.
11. FAP-1 and NF-κB expressions in oral squamous cell carcinoma as potential markers for chemo-radio sensitivity and prognosis. Nariai Y, etal., Int J Oral Maxillofac Surg. 2011 Apr;40(4):419-26. doi: 10.1016/j.ijom.2010.10.020. Epub 2010 Dec 19.
12. Genetic polymorphisms in the PTPN13 gene and risk of squamous cell carcinoma of head and neck. Niu J, etal., Carcinogenesis. 2009 Dec;30(12):2053-8. doi: 10.1093/carcin/bgp265.
13. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. The nonreceptor-type tyrosine phosphatase PTPN13 is a tumor suppressor gene in non-small cell lung cancer. Scrima M, etal., Am J Pathol. 2012 Mar;180(3):1202-1214. doi: 10.1016/j.ajpath.2011.11.038. Epub 2012 Jan 13.
18. Colorectal cancer susceptibility variants alter risk of breast cancer in a Chinese Han population. Wei W, etal., Genet Mol Res. 2013 Dec 4;12(4):6268-74. doi: 10.4238/2013.December.4.14.
19. Necl-2/CADM1 interacts with ErbB4 and regulates its activity in GABAergic neurons. Yamada A, etal., Mol Cell Neurosci. 2013 Sep;56:234-43. doi: 10.1016/j.mcn.2013.06.003. Epub 2013 Jun 11.
20. Genetic characterization of fas-associated phosphatase-1 as a putative tumor suppressor gene on chromosome 4q21.3 in hepatocellular carcinoma. Yeh SH, etal., Clin Cancer Res. 2006 Feb 15;12(4):1097-108. doi: 10.1158/1078-0432.CCR-05-1383.
21. PTPL1 suppresses lung cancer cell migration via inhibiting TGF-β1-induced activation of p38 MAPK and Smad 2/3 pathways and EMT. Zhu N, etal., Acta Pharmacol Sin. 2021 Aug;42(8):1280-1287. doi: 10.1038/s41401-020-00596-y. Epub 2021 Feb 3.
Additional References at PubMed
PMID:10526152   PMID:10826496   PMID:11356191   PMID:14516276   PMID:15611135   PMID:17657516   PMID:18413347   PMID:19056867   PMID:19307596   PMID:23108400   PMID:23376485   PMID:23604317  
PMID:25893857  


Genomics

Comparative Map Data
Ptpn13
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8146,412,841 - 6,587,238 (-)NCBIGRCr8
mRatBN7.2146,108,202 - 6,282,619 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl146,108,211 - 6,282,563 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx146,075,850 - 6,250,132 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0147,376,101 - 7,550,395 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0146,075,567 - 6,251,306 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0147,688,551 - 7,863,664 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl147,688,551 - 7,863,664 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0147,662,574 - 7,837,443 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4147,298,209 - 7,433,464 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera146,247,030 - 6,421,249 (-)NCBICelera
Cytogenetic Map14p22NCBI
PTPN13
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38486,594,315 - 86,815,161 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl486,594,315 - 86,815,171 (+)EnsemblGRCh38hg38GRCh38
GRCh37487,515,468 - 87,736,314 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36487,734,909 - 87,955,326 (+)NCBINCBI36Build 36hg18NCBI36
Build 34487,873,063 - 88,093,481NCBI
Celera484,804,545 - 85,025,407 (+)NCBICelera
Cytogenetic Map4q21.3NCBI
HuRef483,259,993 - 83,481,272 (+)NCBIHuRef
CHM1_1487,491,936 - 87,712,801 (+)NCBICHM1_1
T2T-CHM13v2.0489,923,800 - 90,144,654 (+)NCBIT2T-CHM13v2.0
Ptpn13
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395103,573,058 - 103,746,227 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5103,573,058 - 103,746,169 (+)EnsemblGRCm39 Ensembl
GRCm385103,425,192 - 103,598,361 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5103,425,192 - 103,598,303 (+)EnsemblGRCm38mm10GRCm38
MGSCv375103,854,211 - 104,027,380 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365103,702,435 - 103,838,654 (+)NCBIMGSCv36mm8
Celera5100,736,474 - 100,909,700 (+)NCBICelera
Cytogenetic Map5E5NCBI
cM Map550.43NCBI
Ptpn13
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554742,988,639 - 3,140,513 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554742,988,109 - 3,140,520 (-)NCBIChiLan1.0ChiLan1.0
PTPN13
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2384,607,516 - 84,832,925 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1484,869,654 - 85,094,969 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0478,893,598 - 79,118,745 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1489,623,271 - 89,847,616 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl489,623,271 - 89,847,616 (+)Ensemblpanpan1.1panPan2
PTPN13
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13210,125,447 - 10,328,764 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3210,125,441 - 10,328,757 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3231,625,099 - 31,827,790 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03210,148,865 - 10,351,865 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3210,148,847 - 10,351,849 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13210,260,582 - 10,462,901 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03210,086,783 - 10,290,107 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03229,665,082 - 29,868,322 (-)NCBIUU_Cfam_GSD_1.0
Ptpn13
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528570,348 - 266,135 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936920313,814 - 510,001 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936920313,762 - 510,334 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTPN13
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl8132,035,151 - 132,249,411 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.18132,035,170 - 132,200,425 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.28141,369,850 - 141,583,875 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTPN13
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1734,974,028 - 35,200,214 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl734,974,082 - 35,200,293 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603713,661,424 - 13,889,526 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ptpn13
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248723,226,000 - 3,405,805 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248723,183,381 - 3,406,339 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ptpn13
1668 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:427
Count of miRNA genes:230
Interacting mature miRNAs:263
Transcripts:ENSRNOT00000061162
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2300159Bmd61Bone mineral density QTL 615.30.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
2300183Bmd60Bone mineral density QTL 605.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)14126541967Rat
619619Rf4Renal disease susceptibility QTL 44.10.002urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)14132754612Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141131407Rat
71115Niddm15Non-insulin dependent diabetes mellitus QTL 154.8blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14121760611030812Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14121760616960180Rat
724541Niddm53Non-insulin dependent diabetes mellitus QTL 530.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1438130749088978Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)14381307418274691Rat
2293089Iddm31Insulin dependent diabetes mellitus QTL 314.7blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)14381307418274691Rat
1300114Srn2Serum renin concentration QTL 23.27blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)14381307421217635Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14381307424531477Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14381307430767156Rat

Markers in Region
AI103285  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2146,123,705 - 6,123,907 (+)MAPPERmRatBN7.2
Rnor_6.0147,704,046 - 7,704,247NCBIRnor6.0
Rnor_5.0147,678,069 - 7,678,270UniSTSRnor5.0
RGSC_v3.4147,313,704 - 7,313,905UniSTSRGSC3.4
Celera146,262,498 - 6,262,699UniSTS
RH 3.4 Map14127.6UniSTS
Cytogenetic Map14p22UniSTS
RH127417  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2146,108,530 - 6,108,724 (+)MAPPERmRatBN7.2
Rnor_6.0147,688,871 - 7,689,064NCBIRnor6.0
Rnor_5.0147,662,894 - 7,663,087UniSTSRnor5.0
RGSC_v3.4147,298,529 - 7,298,722UniSTSRGSC3.4
Celera146,247,350 - 6,247,543UniSTS
RH 3.4 Map14127.6UniSTS
Cytogenetic Map14p22UniSTS
10.MHAa98e10.seq  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2146,281,557 - 6,281,724 (+)MAPPERmRatBN7.2
Rnor_6.0147,862,660 - 7,862,826NCBIRnor6.0
Rnor_5.0147,836,439 - 7,836,605UniSTSRnor5.0
Celera146,420,245 - 6,420,411UniSTS
Cytogenetic Map14p22UniSTS


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 24 5 4 1 4 25 35 40 11
Low 3 19 52 37 18 37 8 11 49 1 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000061162   ⟹   ENSRNOP00000057876
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl146,108,211 - 6,282,563 (-)Ensembl
Rnor_6.0 Ensembl147,688,551 - 7,863,664 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000087081   ⟹   ENSRNOP00000071873
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl146,108,211 - 6,282,563 (-)Ensembl
Rnor_6.0 Ensembl147,689,127 - 7,824,209 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099356   ⟹   ENSRNOP00000083228
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl146,108,211 - 6,282,563 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119111   ⟹   ENSRNOP00000087844
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl146,108,211 - 6,282,563 (-)Ensembl
RefSeq Acc Id: NM_001100789   ⟹   NP_001094259
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8146,412,841 - 6,587,171 (-)NCBI
mRatBN7.2146,108,211 - 6,282,563 (-)NCBI
Rnor_6.0147,688,551 - 7,863,664 (-)NCBI
Rnor_5.0147,662,574 - 7,837,443 (-)NCBI
Celera146,247,030 - 6,421,249 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039092274   ⟹   XP_038948202
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8146,412,841 - 6,587,238 (-)NCBI
mRatBN7.2146,108,202 - 6,282,616 (-)NCBI
RefSeq Acc Id: XM_039092276   ⟹   XP_038948204
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8146,412,841 - 6,587,238 (-)NCBI
mRatBN7.2146,108,202 - 6,282,615 (-)NCBI
RefSeq Acc Id: XM_063273453   ⟹   XP_063129523
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8146,412,841 - 6,587,238 (-)NCBI
RefSeq Acc Id: XM_063273454   ⟹   XP_063129524
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8146,412,841 - 6,587,238 (-)NCBI
RefSeq Acc Id: XM_063273455   ⟹   XP_063129525
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8146,412,841 - 6,587,219 (-)NCBI
RefSeq Acc Id: NP_001094259   ⟸   NM_001100789
- UniProtKB: A6K5V1 (UniProtKB/TrEMBL),   A0A0G2K1K1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000057876   ⟸   ENSRNOT00000061162
RefSeq Acc Id: ENSRNOP00000071873   ⟸   ENSRNOT00000087081
RefSeq Acc Id: XP_038948202   ⟸   XM_039092274
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K1K1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038948204   ⟸   XM_039092276
- Peptide Label: isoform X5
- UniProtKB: A0A8I6A6L8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000087844   ⟸   ENSRNOT00000119111
RefSeq Acc Id: ENSRNOP00000083228   ⟸   ENSRNOT00000099356
RefSeq Acc Id: XP_063129524   ⟸   XM_063273454
- Peptide Label: isoform X3
- UniProtKB: A0A0G2K1K1 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129523   ⟸   XM_063273453
- Peptide Label: isoform X2
- UniProtKB: A0A0G2K1K1 (UniProtKB/TrEMBL),   G3V9S3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063129525   ⟸   XM_063273455
- Peptide Label: isoform X4
- UniProtKB: A0A0G2K1K1 (UniProtKB/TrEMBL),   A0A8I5ZZK7 (UniProtKB/TrEMBL)
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V9S3-F1-model_v2 AlphaFold G3V9S3 1-2455 view protein structure

Transcriptome

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

Promoters
RGD ID:13699181
Promoter ID:EPDNEW_R9706
Type:initiation region
Name:Ptpn13_1
Description:protein tyrosine phosphatase, non-receptor type 13
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_6.0147,863,646 - 7,863,706EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1563360 AgrOrtholog
BioCyc Gene G2FUF-16482 BioCyc
Ensembl Genes ENSRNOG00000002061 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000061162 ENTREZGENE
  ENSRNOT00000061162.5 UniProtKB/TrEMBL
  ENSRNOT00000087081.2 UniProtKB/TrEMBL
  ENSRNOT00000099356.1 UniProtKB/TrEMBL
  ENSRNOT00000119111.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.80.10 UniProtKB/TrEMBL
  2.30.29.30 UniProtKB/TrEMBL
  2.30.42.10 UniProtKB/TrEMBL
  3.90.190.10 UniProtKB/TrEMBL
  Transferase(Phosphotransferase) domain 1 UniProtKB/TrEMBL
InterPro Band_41_domain UniProtKB/TrEMBL
  FERM/acyl-CoA-bd_prot_3-hlx UniProtKB/TrEMBL
  FERM_2 UniProtKB/TrEMBL
  FERM_central UniProtKB/TrEMBL
  FERM_domain UniProtKB/TrEMBL
  FERM_N UniProtKB/TrEMBL
  FERM_PH-like_C UniProtKB/TrEMBL
  KIND UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PDZ_sf UniProtKB/TrEMBL
  PH_like_dom UniProtKB/TrEMBL
  Prot-tyrosine_phosphatase-like UniProtKB/TrEMBL
  Tyr/Dual-sp_Pase UniProtKB/TrEMBL
  Tyr_Pase_cat UniProtKB/TrEMBL
  Tyr_Pase_non-rcpt_typ-13 UniProtKB/TrEMBL
  Tyr_Pase_rcpt/non-rcpt UniProtKB/TrEMBL
  Ubiquitin-rel_dom UniProtKB/TrEMBL
KEGG Report rno:498331 UniProtKB/TrEMBL
NCBI Gene 498331 ENTREZGENE
PANTHER TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 13 UniProtKB/TrEMBL
  TYROSINE-PROTEIN PHOSPHATASE NON-RECEPTOR TYPE 13 UniProtKB/TrEMBL
Pfam FERM_C UniProtKB/TrEMBL
  FERM_M UniProtKB/TrEMBL
  FERM_N UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PTN13_u3 UniProtKB/TrEMBL
  Y_phosphatase UniProtKB/TrEMBL
PhenoGen Ptpn13 PhenoGen
PIRSF Tyr-Ptase_nr13 UniProtKB/TrEMBL
PRINTS BAND41 UniProtKB/TrEMBL
  PRTYPHPHTASE UniProtKB/TrEMBL
PROSITE FERM_3 UniProtKB/TrEMBL
  KIND UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  TYR_PHOSPHATASE_2 UniProtKB/TrEMBL
  TYR_PHOSPHATASE_PTP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000002061 RatGTEx
SMART B41 UniProtKB/TrEMBL
  FERM_C UniProtKB/TrEMBL
  KIND UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PTPc UniProtKB/TrEMBL
  PTPc_motif UniProtKB/TrEMBL
Superfamily-SCOP FERM_3-hlx UniProtKB/TrEMBL
  PDZ UniProtKB/TrEMBL
  PH domain-like UniProtKB/TrEMBL
  SSF52799 UniProtKB/TrEMBL
  SSF54236 UniProtKB/TrEMBL
UniProt A0A0G2K1K1 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZZK7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A6L8 ENTREZGENE, UniProtKB/TrEMBL
  A6K5V1 ENTREZGENE, UniProtKB/TrEMBL
  G3V9S3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Ptpn13  protein tyrosine phosphatase, non-receptor type 13  LOC100910240  tyrosine-protein phosphatase non-receptor type 13-like  Data merged from RGD:6499531 737654 PROVISIONAL
2012-07-05 LOC100910240  tyrosine-protein phosphatase non-receptor type 13-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-05 Ptpn13  protein tyrosine phosphatase, non-receptor type 13  LOC498331  similar to protein Tyr phosphatase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC498331  similar to protein Tyr phosphatase      Symbol and Name status set to provisional 70820 PROVISIONAL