Ptprn (protein tyrosine phosphatase, receptor type, N) - Rat Genome Database

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Gene: Ptprn (protein tyrosine phosphatase, receptor type, N) Rattus norvegicus
Analyze
Symbol: Ptprn
Name: protein tyrosine phosphatase, receptor type, N
RGD ID: 620777
Description: Enables GTPase binding activity. Involved in several processes, including positive regulation of type B pancreatic cell proliferation; response to cAMP; and response to estrogen. Located in several cellular components, including axon terminus; neuronal cell body; and secretory granule. Colocalizes with Golgi apparatus; endosome; and plasma membrane. Used to study type 1 diabetes mellitus. Human ortholog(s) of this gene implicated in type 1 diabetes mellitus. Orthologous to human PTPRN (protein tyrosine phosphatase receptor type N); PARTICIPATES IN type 1 diabetes mellitus pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 105 kDa islet cell antigen; BEM-3; brain-enriched membrane-associated protein tyrosine phosphatase; Ia-2; ICA105; ICA512; PTP IA-2; PTPLP; R-PTP-N; receptor-type tyrosine-protein phosphatase-like N
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
mRatBN7.2976,741,010 - 76,756,704 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl976,741,016 - 76,756,190 (-)Ensembl
Rnor_6.0982,446,626 - 82,462,314 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl982,446,633 - 82,461,903 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0982,215,889 - 82,231,560 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4974,528,095 - 74,542,756 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1974,675,076 - 74,689,738 (-)NCBI
Celera974,311,913 - 74,326,515 (-)NCBICelera
Cytogenetic Map9q33NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-chloropropane-1,2-diol  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
all-trans-retinoic acid  (ISO)
amiodarone  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP)
Butylbenzyl phthalate  (EXP)
cadmium dichloride  (EXP)
calcitriol  (ISO)
choline  (ISO)
dibutyl phthalate  (EXP)
diethyl phthalate  (EXP)
diisobutyl phthalate  (EXP)
diisononyl phthalate  (EXP)
dioxygen  (EXP)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
finasteride  (EXP)
fipronil  (EXP)
folic acid  (ISO)
furan  (EXP)
genistein  (EXP)
gentamycin  (EXP)
irinotecan  (ISO)
ketamine  (EXP)
L-methionine  (ISO)
lead diacetate  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
leflunomide  (EXP)
methoxychlor  (EXP)
miconazole  (EXP)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-methyl-4-phenylpyridinium  (EXP,ISO)
orphenadrine  (EXP)
paracetamol  (EXP)
paraquat  (EXP)
pravastatin  (EXP,ISO)
propanal  (ISO)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (EXP)
serpentine asbestos  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulindac  (EXP)
sunitinib  (ISO)
tamibarotene  (ISO)
testosterone  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
tributylstannane  (EXP)
trichloroethene  (EXP)
triptonide  (ISO)
valdecoxib  (EXP)
valproic acid  (EXP,ISO)
WIN 55212-2  (ISO)
zaragozic acid A  (EXP,ISO)
zinc atom  (ISO)
zinc sulfate  (ISO)
zinc(0)  (ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:7887886   PMID:8878556   PMID:11086001   PMID:12031972   PMID:15596545   PMID:16269463   PMID:16622421   PMID:18048354   PMID:21732083   PMID:23087044   PMID:24843546   PMID:25561468  
PMID:30053369   PMID:30979722  


Genomics

Comparative Map Data
Ptprn
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2976,741,010 - 76,756,704 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl976,741,016 - 76,756,190 (-)Ensembl
Rnor_6.0982,446,626 - 82,462,314 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl982,446,633 - 82,461,903 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0982,215,889 - 82,231,560 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4974,528,095 - 74,542,756 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1974,675,076 - 74,689,738 (-)NCBI
Celera974,311,913 - 74,326,515 (-)NCBICelera
Cytogenetic Map9q33NCBI
PTPRN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382219,289,623 - 219,309,401 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2219,289,623 - 219,309,648 (-)EnsemblGRCh38hg38GRCh38
GRCh372220,154,345 - 220,174,123 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362219,862,589 - 219,882,387 (-)NCBINCBI36hg18NCBI36
Build 342219,979,851 - 219,999,648NCBI
Celera2213,924,192 - 213,944,148 (-)NCBI
Cytogenetic Map2q35NCBI
HuRef2212,007,432 - 212,027,331 (-)NCBIHuRef
CHM1_12220,160,193 - 220,180,139 (-)NCBICHM1_1
T2T-CHM13v2.02219,774,379 - 219,794,153 (-)NCBI
Ptprn
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39175,223,679 - 75,241,437 (-)NCBIGRCm39mm39
GRCm39 Ensembl175,223,671 - 75,241,146 (-)Ensembl
GRCm38175,247,035 - 75,264,497 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl175,247,027 - 75,264,502 (-)EnsemblGRCm38mm10GRCm38
MGSCv37175,243,616 - 75,260,783 (-)NCBIGRCm37mm9NCBIm37
MGSCv36175,130,189 - 75,147,297 (-)NCBImm8
Celera175,737,937 - 75,755,020 (-)NCBICelera
Cytogenetic Map1C4NCBI
cM Map138.64NCBI
Ptprn
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545314,126,416 - 14,145,347 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545314,126,416 - 14,145,347 (+)NCBIChiLan1.0ChiLan1.0
PTPRN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B225,138,283 - 225,158,118 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B225,138,887 - 225,206,700 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B106,547,156 - 106,567,056 (-)NCBIMhudiblu_PPA_v0panPan3
PTPRN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13725,835,590 - 25,854,050 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3725,836,118 - 25,869,931 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3726,661,448 - 26,679,881 (-)NCBI
ROS_Cfam_1.03725,850,814 - 25,869,258 (-)NCBI
ROS_Cfam_1.0 Ensembl3725,849,713 - 25,869,231 (-)Ensembl
UMICH_Zoey_3.13725,755,175 - 25,773,586 (-)NCBI
UNSW_CanFamBas_1.03725,690,528 - 25,708,945 (-)NCBI
UU_Cfam_GSD_1.03725,711,218 - 25,729,647 (-)NCBI
Ptprn
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303175,355,937 - 175,374,833 (-)NCBI
SpeTri2.0NW_0049365691,698,718 - 1,717,639 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PTPRN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15121,329,288 - 121,349,276 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.115121,329,284 - 121,349,228 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215134,364,686 - 134,384,609 (-)NCBISscrofa10.2Sscrofa10.2susScr3
PTPRN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110105,196,508 - 105,216,665 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl10105,196,505 - 105,216,525 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604094,181,166 - 94,200,998 (+)NCBIVero_WHO_p1.0
Ptprn
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248235,710,622 - 5,729,093 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248235,710,669 - 5,734,739 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
D9Mco68  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,742,351 - 76,742,539 (+)MAPPERmRatBN7.2
Rnor_6.0982,447,968 - 82,448,155NCBIRnor6.0
Rnor_5.0982,217,229 - 82,217,416UniSTSRnor5.0
RGSC_v3.4974,528,930 - 74,529,117UniSTSRGSC3.4
Celera974,312,748 - 74,312,935UniSTS
Cytogenetic Map9q33UniSTS
D9Mco44  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,757,822 - 76,758,010 (+)MAPPERmRatBN7.2
Rnor_6.0982,463,433 - 82,463,620NCBIRnor6.0
Rnor_5.0982,232,694 - 82,232,881UniSTSRnor5.0
RGSC_v3.4974,544,448 - 74,544,635UniSTSRGSC3.4
Celera974,328,207 - 74,328,394UniSTS
Cytogenetic Map9q33UniSTS
RH131806  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,741,156 - 76,741,349 (+)MAPPERmRatBN7.2
Rnor_6.0982,446,773 - 82,446,965NCBIRnor6.0
Rnor_5.0982,216,034 - 82,216,226UniSTSRnor5.0
RGSC_v3.4974,527,735 - 74,527,927UniSTSRGSC3.4
Celera974,311,553 - 74,311,745UniSTS
Cytogenetic Map9q33UniSTS
X74438  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,741,016 - 76,741,112 (+)MAPPERmRatBN7.2
Rnor_6.0982,446,633 - 82,446,728NCBIRnor6.0
Rnor_5.0982,215,894 - 82,215,989UniSTSRnor5.0
RGSC_v3.4974,527,595 - 74,527,690UniSTSRGSC3.4
Celera974,311,413 - 74,311,508UniSTS
Cytogenetic Map9q33UniSTS
MARC_8095-8096:996688286:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,745,650 - 76,746,337 (+)MAPPERmRatBN7.2
Rnor_6.0982,451,265 - 82,451,951NCBIRnor6.0
Rnor_5.0982,220,526 - 82,221,212UniSTSRnor5.0
RGSC_v3.4974,532,227 - 74,532,913UniSTSRGSC3.4
Celera974,316,045 - 74,316,731UniSTS
Cytogenetic Map9q33UniSTS
PTPRN_1350  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2976,741,022 - 76,741,590 (+)MAPPERmRatBN7.2
Rnor_6.0982,446,639 - 82,447,206NCBIRnor6.0
Rnor_5.0982,215,900 - 82,216,467UniSTSRnor5.0
RGSC_v3.4974,527,601 - 74,528,168UniSTSRGSC3.4
Celera974,311,419 - 74,311,986UniSTS
Cytogenetic Map9q33UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10054125Srcrt7Stress Responsive Cort QTL 73.330.0011blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)9187073594Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92207116986369743Rat
7207814Bmd91Bone mineral density QTL 913.5femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)92375414483851531Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)92526804479271759Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)925268044114175309Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)925661188100929786Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)93253550577535505Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)93253550577535505Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)93696235977814038Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)93696235992058970Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)93696235995410867Rat
6903941Pur31Proteinuria QTL 310.036total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)94019418885194188Rat
11353949Bp393Blood pressure QTL 393arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94019418885194188Rat
61352Bp34Blood pressure QTL 345arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94249534379271511Rat
10058949Gmadr5Adrenal mass QTL 520.014adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)94279151387976209Rat
11353951Bp394Blood pressure QTL 394arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94464992189649921Rat
12879506Pur33Proteinuria QTL 33total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)94464992189649921Rat
11353957Bmd92Bone mineral density QTL 920.01tibia mineral mass (VT:1000283)volumetric bone mineral density (CMO:0001553)94611419991114199Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)94859825193598251Rat
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)95584784177026453Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)95662771378595166Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)95662771378595166Rat
2303180Bp333Blood pressure QTL 3330.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)95662771378595166Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)956771635101771635Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)958163035100929646Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)961381434104821652Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)96207227596470995Rat
1578757Pur6Proteinuria QTL 63.30.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)96207227596470995Rat
61385Edpm9Estrogen-dependent pituitary mass QTL 93.430.05pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)963869687108869687Rat
731171Glom6Glomerulus QTL 62.80.0003kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)964573531109573531Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)975712843111552878Rat
1581517Bp284Blood pressure QTL 284arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)97665062976771824Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:88
Count of miRNA genes:71
Interacting mature miRNAs:80
Transcripts:ENSRNOT00000026654
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.


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 4 2 2 72 13 4
Low 3 32 45 31 11 31 3 3 2 22 37 9 3
Below cutoff 11 8 8 8 8 5 7 2 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026654   ⟹   ENSRNOP00000026654
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,741,016 - 76,756,190 (-)Ensembl
Rnor_6.0 Ensembl982,446,633 - 82,461,903 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094318   ⟹   ENSRNOP00000081951
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,741,016 - 76,755,174 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000111188   ⟹   ENSRNOP00000088497
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl976,741,019 - 76,756,177 (-)Ensembl
RefSeq Acc Id: NM_053881   ⟹   NP_446333
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,741,517 - 76,756,131 (-)NCBI
Rnor_6.0982,447,133 - 82,461,741 (-)NCBI
Rnor_5.0982,215,889 - 82,231,560 (-)NCBI
RGSC_v3.4974,528,095 - 74,542,756 (-)RGD
Celera974,311,913 - 74,326,515 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245134   ⟹   XP_006245196
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,741,023 - 76,756,215 (-)NCBI
Rnor_6.0982,446,626 - 82,461,822 (-)NCBI
Rnor_5.0982,215,889 - 82,231,560 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596229   ⟹   XP_017451718
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,741,010 - 76,756,704 (-)NCBI
Rnor_6.0982,446,626 - 82,462,314 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596230   ⟹   XP_017451719
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,741,023 - 76,756,704 (-)NCBI
Rnor_6.0982,446,626 - 82,462,314 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039082907   ⟹   XP_038938835
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2976,741,023 - 76,755,830 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_446333   ⟸   NM_053881
- Peptide Label: precursor
- UniProtKB: Q63259 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006245196   ⟸   XM_006245134
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017451719   ⟸   XM_017596230
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017451718   ⟸   XM_017596229
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000026654   ⟸   ENSRNOT00000026654
RefSeq Acc Id: XP_038938835   ⟸   XM_039082907
- Peptide Label: isoform X4
RefSeq Acc Id: ENSRNOP00000088497   ⟸   ENSRNOT00000111188
RefSeq Acc Id: ENSRNOP00000081951   ⟸   ENSRNOT00000094318
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q63259-F1-model_v2 AlphaFold Q63259 1-983 view protein structure

Transcriptome

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

Promoters
RGD ID:13696777
Promoter ID:EPDNEW_R7301
Type:initiation region
Name:Ptprn_1
Description:protein tyrosine phosphatase, receptor type, N
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_6.0982,461,769 - 82,461,829EPDNEW

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)
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
DA/OlaHsd (2019)
Visual CSV TAB Printer
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)
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
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)
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
GK/FarMcwi (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
HXB10/IpcvMcwi (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
HXB2/IpcvMcwi (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
HXB20/IpcvMcwi (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
HXB31/IpcvMcwi (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
HXB4/IpcvMcwi (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
LE/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: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (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
LEXF10A/StmMcwi (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
LEXF11/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
LEXF1A/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
LEXF1C/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
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)
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
LEXF4/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
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
Visual CSV TAB Printer
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)
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
M520/NRrrcMcwi (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
MR/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
MWF/Hsd (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
PVG/Seac (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
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)
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
SR/JrHsd (2020)
Visual CSV TAB Printer
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)
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
WKY/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
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)
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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620777 AgrOrtholog
BioCyc Gene G2FUF-27085 BioCyc
Ensembl Genes ENSRNOG00000019587 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000026654 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000026654 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.30.70.2470 UniProtKB/Swiss-Prot
  3.90.190.10 UniProtKB/Swiss-Prot
InterPro IA-2/IA-2_beta UniProtKB/Swiss-Prot
  Prot-tyrosine_phosphatase-like UniProtKB/Swiss-Prot
  PTPase_domain UniProtKB/Swiss-Prot
  Receptor_IA-2_dom UniProtKB/Swiss-Prot
  Receptor_IA-2_ectodomain_sf UniProtKB/Swiss-Prot
  RESP18_dom UniProtKB/Swiss-Prot
  Tyr_Pase_AS UniProtKB/Swiss-Prot
  Tyr_Pase_cat UniProtKB/Swiss-Prot
  TYR_PHOSPHATASE_dom UniProtKB/Swiss-Prot
KEGG Report rno:116660 UniProtKB/Swiss-Prot
NCBI Gene 116660 ENTREZGENE
PANTHER PTHR46106 UniProtKB/Swiss-Prot
Pfam Receptor_IA-2 UniProtKB/Swiss-Prot
  RESP18 UniProtKB/Swiss-Prot
  Y_phosphatase UniProtKB/Swiss-Prot
PhenoGen Ptprn PhenoGen
PRINTS PRTYPHPHTASE UniProtKB/Swiss-Prot
PROSITE TYR_PHOSPHATASE_1 UniProtKB/Swiss-Prot
  TYR_PHOSPHATASE_2 UniProtKB/Swiss-Prot
  TYR_PHOSPHATASE_PTP UniProtKB/Swiss-Prot
SMART PTPc UniProtKB/Swiss-Prot
  PTPc_motif UniProtKB/Swiss-Prot
Superfamily-SCOP SSF52799 UniProtKB/Swiss-Prot
UniProt PTPRN_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q62883 UniProtKB/Swiss-Prot
  Q63795 UniProtKB/Swiss-Prot
  Q64643 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Ptprn  protein tyrosine phosphatase, receptor type, N      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Ptprn  protein tyrosine phosphatase, receptor type, N      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_disease autoantibodies to the cytoplasmic domain occur in 55{75% of newly diagnosed patients with type 1 diabetes 628454
gene_expression expressed in neurons and in pancreatic islets 628454
gene_physical_interaction binds to beta2-syntrophin and neuronal nitric oxide synthase 628454
gene_process connects the secretory granules with the actin cytoskeleton and the nitric oxide signaling pathways in beta-cells 628454
gene_process may regulate the beta- cell function 628454
gene_product member of the protein tyrosine phosphatase family 628454
gene_product membrane protein of the secretory vesicles 628454
gene_regulation expression is inhibited by IL-1b, TNF-alpha, and IFN-gamma 628454