Ptpn13 MGI Mouse Gene Detail - MGI:103293 - protein tyrosine phosphatase, non-receptor type 13

Symbol

Ptpn13
Name

protein tyrosine phosphatase, non-receptor type 13
Synonyms

PTP-BL, PTPL1, Ptpri

Feature Type

protein coding gene
IDs

MGI:103293
NCBI Gene: 19249
Alliance

gene page
Transcription Start Sites

11 TSS

Sequence Map

Chr5:103573058-103746169 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 5, 50.43 cM, cytoband E-F
Mapping Data

5 experiments

SNPs within 2kb

5218 from dbSNP Build 142
Strain Annotations

18
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_103293	protein coding gene	Chr5:103573058-103746227 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0029800	protein coding gene	Chr5:105057229-105237899 (+)
A/J	MGP_AJ_G0029764	protein coding gene	Chr5:101110403-101286450 (+)
AKR/J	MGP_AKRJ_G0029712	protein coding gene	Chr5:104370402-104551692 (+)
BALB/cJ	MGP_BALBcJ_G0029776	protein coding gene	Chr5:102173738-102347880 (+)
C3H/HeJ	MGP_C3HHeJ_G0029499	protein coding gene	Chr5:104781017-104960958 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0030231	protein coding gene	Chr5:109343117-109524871 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0027466	protein coding gene	Chr5:96259107-96435388 (+)
CAST/EiJ	MGP_CASTEiJ_G0028910	protein coding gene	Chr5:103483950-103665319 (+)
CBA/J	MGP_CBAJ_G0029469	protein coding gene	Chr5:113168127-113349784 (+)
DBA/2J	MGP_DBA2J_G0029613	protein coding gene	Chr5:101296379-101479909 (+)
FVB/NJ	MGP_FVBNJ_G0029572	protein coding gene	Chr5:100105717-100279743 (+)
LP/J	MGP_LPJ_G0029701	protein coding gene	Chr5:105627876-105810692 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0029601	protein coding gene	Chr5:118117727-118299639 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0030264	protein coding gene	Chr5:103908750-104087186 (+)
PWK/PhJ	MGP_PWKPhJ_G0028628	protein coding gene	Chr5:99752219-99932518 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0028463	protein coding gene	Chr5:101563654-101743338 (+)
WSB/EiJ	MGP_WSBEiJ_G0028988	protein coding gene	Chr5:104273720-104457801 (+)

Human Ortholog

PTPN13, protein tyrosine phosphatase non-receptor type 13

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

PTPN13, protein tyrosine phosphatase non-receptor type 13
Synonyms

FAP-1, hPTP1E, PNP1, PTP1E, PTP-BAS, PTP-BL, PTPL1, PTPLE
Links

HGNC:9646

NCBI Gene ID: 5783

neXtProt AC: NX_Q12923

UniProt: Q12923
Chr Location

4q21.3; chr4:86594315-86815171 (+) GRCh38

MGI Vertebrate Homology

Ptpn13 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: PTPN13
Protein SuperFamily

Tyr-Ptase_nr13
Gene Tree

Ptpn13

Diseases

7 with human PTPN13 associations

				Human Disease	Mouse Models
				breast cancer IDs breast cancer DOID:1612 DOID:1648 DOID:4241 ICD10CM:C50 ICD9CM:174.8 MESH:D001943 NCI:C9335 OMIM:114480 UMLS_CUI:C0006142
				colon cancer IDs colon cancer DOID:219 ICD10CM:C18 ICD9CM:153 ICD9CM:153.9 MESH:D003110 NCI:C9242 UMLS_CUI:C0007102
				colorectal cancer IDs colorectal cancer DOID:9256 ICD10CM:C18.9 KEGG:05210 MESH:D015179 NCI:C2956 NCI:C4978 OMIM:114500 UMLS_CUI:C0009404 UMLS_CUI:C0346629
				head and neck squamous cell carcinoma IDs head and neck squamous cell carcinoma DOID:5520 MESH:D000077195 NCI:C34447 OMIM:275355 UMLS_CUI:C1168401
				hepatocellular carcinoma IDs hepatocellular carcinoma DOID:684 DOID:5005 EFO:0000182 ICD10CM:C22.0 MESH:D006528 NCI:C3099 OMIM:114550 ORDO:88673 UMLS_CUI:C2239176
				lung adenocarcinoma IDs lung adenocarcinoma DOID:3910 DOID:4826 EFO:0000571 MESH:D000077192 NCI:C27745 NCI:C3512 UMLS_CUI:C0152013 UMLS_CUI:C1335060
				lung squamous cell carcinoma IDs lung squamous cell carcinoma DOID:3907 NCI:C3493 UMLS_CUI:C0149782

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

10 phenotypes from 2 alleles in 3 genetic backgrounds
1 phenotype from multigenic genotypes
14 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

12
Chemically induced (other)

1
Endonuclease-mediated

3
Gene trapped

4
Radiation induced

1
Spontaneous

1
Targeted

2
Genomic Mutations

3 involving Ptpn13
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

96 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a null allele exhibit abnormal T-helper cell differentiation.

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All GO Annotations

38
GO References

12

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

744
Tissues

34
cDNA Data

118
Literature Summary

6

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase ptpn13

ZFIN ptpn13

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All Sequences

61
RefSeq

2
UniProt

10
CCDS

CCDS39186.1

Ensembl

ENSMUSG00000034573 (Evidence)
NCBI Gene

19249

			Length	Strain/Species	Flank
genomic	ENSMUSG00000034573	Ensembl Gene Model \| MGI Sequence Detail	173112	C57BL/6J	± kb
transcript	ENSMUST00000048957	Ensembl \| MGI Sequence Detail	7915	Not Applicable
polypeptide	ENSMUSP00000048119	Ensembl \| MGI Sequence Detail	2451	Not Applicable

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UniProt

10 Sequences
Protein Ontology

PR:000013451 tyrosine-protein phosphatase non-receptor type 13

(term hierarchy)
PDB

1GM1, 1OZI, 1VJ6, 6GBD, 6GBE
EC

3.1.3.48
InterPro Domains

IPR019749 Band 4.1 domain

IPR014352 FERM/acyl-CoA-binding protein superfamily

IPR019748 FERM central domain

IPR018980 FERM, C-terminal PH-like domain

IPR000299 FERM domain

IPR018979 FERM, N-terminal

IPR035963 FERM superfamily, second domain

IPR011019 KIND domain

IPR052074 Non-receptor Tyrosine-protein Phosphatases

IPR036085 PAZ domain superfamily

IPR001478 PDZ domain

IPR036034 PDZ superfamily

IPR011993 PH-like domain superfamily

IPR003595 Protein-tyrosine phosphatase, catalytic

IPR029021 Protein-tyrosine phosphatase-like

IPR012153 Tyrosine-protein phosphatase non-receptor type 13

IPR000242 Tyrosine-specific protein phosphatase, PTPase domain

IPR000387 Tyrosine-specific protein phosphatases domain

IPR029071 Ubiquitin-like domain superfamily
GlyGen

Q64512 3 sites, 2 N-linked glycans (2 sites), 1 O-linked glycan (1 site)

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All nucleic 131

Genomic 3

cDNA 119

Primer pair 3

Other 6

Microarray probesets 4

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MGD-MRK-24175, MGD-MRK-24182, MGI:2140837

Summaries

All 63

Developmental Gene Expression 6

Gene Ontology 12

Phenotypes 14
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

J:323750 Wang Y, et al., The tyrosine phosphatase PTPN13/FAP-1 links calpain-2, TBI and tau tyrosine phosphorylation. Sci Rep. 2017 Sep 18;7(1):11771

TSS for Ptpn13:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr47557	Chr5:103573047-103573063 (+)	-3 bp
Tssr47558	Chr5:103573068-103573097 (+)	25 bp
Tssr47559	Chr5:103573099-103573125 (+)	54 bp
Tssr47560	Chr5:103648979-103648997 (+)	75,930 bp
Tssr47561	Chr5:103649231-103649291 (+)	76,203 bp
Tssr47562	Chr5:103649304-103649315 (+)	76,252 bp
Tssr47563	Chr5:103649316-103649342 (+)	76,271 bp
Tssr47564	Chr5:103649422-103649436 (+)	76,371 bp
Tssr47565	Chr5:103649456-103649467 (+)	76,404 bp
Tssr47566	Chr5:103663992-103664003 (+)	90,940 bp
Tssr47567	Chr5:103705775-103705793 (+)	132,726 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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