Gene Page: PTPN4

Summary ?
GeneID5775
SymbolPTPN4
SynonymsMEG|PTPMEG|PTPMEG1
Descriptionprotein tyrosine phosphatase, non-receptor type 4
ReferenceMIM:176878|HGNC:HGNC:9656|Ensembl:ENSG00000088179|HPRD:01471|Vega:OTTHUMG00000131436
Gene typeprotein-coding
Map location2q14.2
Pascal p-value0.571
Sherlock p-value0.026
Fetal beta-0.834
eGeneCerebellum
Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
GSMA_IGenome scan meta-analysisPsr: 0.023 
GSMA_IIAGenome scan meta-analysis (All samples)Psr: 0.00755 

Section I. Genetics and epigenetics annotation

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs4366501chr11133380324PTPN457750.05trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

No co-expressed genes in brain regions


Section III. Gene Ontology annotation

Molecular functionGO termEvidenceNeuro keywordsPubMed ID
GO:0004726non-membrane spanning protein tyrosine phosphatase activityTAS1648233 
GO:0016787hydrolase activityIEA-
GO:0005198structural molecule activityIEA-
GO:0008092cytoskeletal protein bindingIEA-
Biological processGO termEvidenceNeuro keywordsPubMed ID
GO:0006470protein amino acid dephosphorylationTAS1648233 
Cellular componentGO termEvidenceNeuro keywordsPubMed ID
GO:0005856cytoskeletonIEA-
GO:0005737cytoplasmTAS1648233 
GO:0005886plasma membraneIEA-
GO:0019898extrinsic to membraneIEA-

Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
HORIUCHI WTAP TARGETS UP 306188All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 MUTATED SIGNATURE 1 UP 276165All SZGR 2.0 genes in this pathway
MULLIGHAN NPM1 SIGNATURE 3 UP 341197All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC DN 537339All SZGR 2.0 genes in this pathway
SILIGAN BOUND BY EWS FLT1 FUSION 4734All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855609All SZGR 2.0 genes in this pathway
YAGI AML FAB MARKERS 191131All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546362All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN 342220All SZGR 2.0 genes in this pathway
FONTAINE PAPILLARY THYROID CARCINOMA DN 8053All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA familyTarget positionmiRNA IDmiRNA seq
UTR startUTR endMatch method
miR-1285258m8hsa-miR-128aUCACAGUGAACCGGUCUCUUUU
hsa-miR-128bUCACAGUGAACCGGUCUCUUUC
miR-142-5p143149m8hsa-miR-142-5pCAUAAAGUAGAAAGCACUAC
miR-143329335m8hsa-miR-143brainUGAGAUGAAGCACUGUAGCUCA
miR-17-5p/20/93.mr/106/519.d1411481A,m8hsa-miR-17-5pCAAAGUGCUUACAGUGCAGGUAGU
hsa-miR-20abrainUAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106aAAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZUAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZCAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519dCAAAGUGCCUCCCUUUAGAGUGU
miR-18356631A,m8hsa-miR-183UAUGGCACUGGUAGAAUUCACUG
miR-330208214m8hsa-miR-330brainGCAAAGCACACGGCCUGCAGAGA