Human Gene PTPN22 (ENST00000359785.10_8) from GENCODE V47lift37

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Description: protein tyrosine phosphatase non-receptor type 22, transcript variant 1 (from RefSeq NM_015967.8)
Gencode Transcript: ENST00000359785.10_8
Gencode Gene: ENSG00000134242.16_11
Transcript (Including UTRs)
Position: hg19 chr1:114,356,433-114,414,334 Size: 57,902 Total Exon Count: 21 Strand: -
Coding Region
Position: hg19 chr1:114,357,527-114,414,245 Size: 56,719 Coding Exon Count: 21

Page Index	Sequence and Links	Primers	MalaCards	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Other Species	mRNA Descriptions	Other Names
Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr1:114,356,433-114,414,334)			mRNA (may differ from genome)		Protein (807 aa)
Gene Sorter	Genome Browser	Other Species FASTA	Gene interactions	Table Schema	AlphaFold
BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards	HGNC
Malacards	MGI	OMIM	PubMed	UniProtKB	Wikipedia
BioGrid CRISPR DB

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

MalaCards Disease Associations


	MalaCards Gene Search: PTPN22 Diseases sorted by gene-association score: systemic lupus erythematosus* (916), rheumatoid arthritis* (667), diabetes mellitus, insulin-dependent* (635), vitiligo-associated multiple autoimmune disease susceptibility 6* (300), vogt-koyanagi-harada disease* (47), arthritis (31), lupus erythematosus (25), graves' disease (18), rheumatoid factor-negative juvenile idiopathic arthritis* (18), pediatric systemic lupus erythematosus* (18), temporal arteritis* (17), wegener granulomatosis* (15), addison's disease (14), hashimoto thyroiditis (13), palindromic rheumatism (11), hypersensitivity reaction type ii disease (11), vitiligo-associated multiple autoimmune disease susceptibility 1 (10), anterior uveitis (9), alpha/beta t-cell lymphopenia with gamma/delta t-cell expansion, severe cytomegalovirus infection, and autoimmunity (9), psoriatic arthritis (9), oligoarticular juvenile idiopathic arthritis* (8), celiac disease (8), alopecia areata (8), autoimmune addison disease (7), multifocal motor neuropathy (7), sapho syndrome (7), autoimmune disease of endocrine system (6), adrenal cortical hypofunction (5), rheumatoid arthritis, systemic juvenile (1), bone inflammation disease (1) * = Manually curated disease association

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D001564 Benzo(a)pyrene C009505 4,4'-diaminodiphenylmethane D000082 Acetaminophen D000535 Aluminum D001554 Benzene D003010 Clorgyline D004958 Estradiol D005839 Gentamicins D006861 Hydrogen Peroxide D058185 Magnetite Nanoparticles more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 22.14 RPKM in Cells - EBV-transformed lymphocytes Total median expression: 67.21 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-14.20	89	-0.160	Picture	PostScript	Text
3' UTR	-200.40	1094	-0.183	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	Genome Browser	No ortholog
Gene Details	Gene Details			Gene Details
Gene Sorter	Gene Sorter			Gene Sorter
	RGD			WormBase
				Protein Sequence
				Alignment

Descriptions from all associated GenBank mRNAs


	KJ902426 - Synthetic construct Homo sapiens clone ccsbBroadEn_11820 PTPN22 gene, encodes complete protein. BC071670 - Homo sapiens protein tyrosine phosphatase, non-receptor type 22 (lymphoid), mRNA (cDNA clone MGC:87871 IMAGE:5497108), complete cds. BC017785 - Homo sapiens protein tyrosine phosphatase, non-receptor type 22 (lymphoid), mRNA (cDNA clone IMAGE:4666653), complete cds. AF001846 - Homo sapiens lymphoid phosphatase LyP1 mRNA, complete cds. JD305076 - Sequence 286100 from Patent EP1572962. JD355263 - Sequence 336287 from Patent EP1572962. JD545300 - Sequence 526324 from Patent EP1572962. AF150732 - Homo sapiens protein tyrosine phosphatase (PTP) mRNA, complete cds. AF077031 - Homo sapiens protein tyrosine phosphatase homolog mRNA, complete cds. AK303124 - Homo sapiens cDNA FLJ55436 complete cds, highly similar to Tyrosine-protein phosphatase non-receptortype 22 (EC 3.1.3.48). JD538574 - Sequence 519598 from Patent EP1572962. GU479452 - Homo sapiens tyrosine phosphatase LYP variant 3 mRNA, complete cds, alternatively spliced. JN084012 - Homo sapiens tyrosine-protein phosphatase non-receptor type 22 isoform 8 (PTPN22) mRNA, complete cds, alternatively spliced. AB587398 - Synthetic construct DNA, clone: pF1KB5747, Homo sapiens PTPN22 gene for protein tyrosine phosphatase, non-receptor type 22, without stop codon, in Flexi system. AK310698 - Homo sapiens cDNA, FLJ17740. AK310570 - Homo sapiens cDNA, FLJ17612. AF001847 - Homo sapiens lymphoid phosphatase LyP2 mRNA, complete cds. U69700 - Human protein tyrosine phosphatase PEP mRNA, partial cds. JD053341 - Sequence 34365 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: A0A0B4J1S7, A0A0B4J1S7_HUMAN, ENST00000359785.1, ENST00000359785.2, ENST00000359785.3, ENST00000359785.4, ENST00000359785.5, ENST00000359785.6, ENST00000359785.7, ENST00000359785.8, ENST00000359785.9, NM_015967, PTPN22 , uc318bfj.1, uc318bfj.2 UCSC ID: ENST00000359785.10_8 RefSeq Accession: NM_015967.8

Gene Model Information


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Methods, Credits, and Use Restrictions


	Click here for details on how this gene model was made and data restrictions if any.