Ptpn13 protein tyrosine phosphatase, non-receptor type 13 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ptpn13provided by RGD
Full Name: protein tyrosine phosphatase, non-receptor type 13provided by RGD
Primary source: RGD:1563360
See related: EnsemblRapid:ENSRNOG00000002061 AllianceGenome:RGD:1563360
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: ptp; Ptp-bl
Summary: 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). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 261.9), Lung (RPKM 157.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14p22

Exon count:: 48

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (6412841..6587238, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (6108202..6282619, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (7688551..7863664, complement)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PTP-BL plays an important role in the regulation of cell cycle progression in pancreatic beta-cells, and that it interacts functionally with components of the Wnt signalling pathway.
Title: The protein tyrosine phosphatase-BL, modulates pancreatic beta-cell proliferation by interaction with the Wnt signalling pathway.

Submit: New GeneRIF Correction

General gene information

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Markers

AI324989 (e-PCR)
- UniSTS:179213

RH127417 (e-PCR)
- UniSTS:210727

AI103285 (e-PCR)
- UniSTS:261184

10.MHAa98e10.seq (e-PCR)
- UniSTS:123014

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone H2AXY142 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables non-membrane spanning protein tyrosine phosphatase activity	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol 3-kinase regulatory subunit binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylinositol 3-kinase regulatory subunit binding	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein tyrosine phosphatase activity	ISO Inferred from Sequence Orthology more info
enables protein tyrosine phosphatase activity, metal-dependent	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cellular response to toxic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of excitatory synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of excitatory synapse assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of protein phosphorylation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in peptidyl-tyrosine dephosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein dephosphorylation	ISO Inferred from Sequence Orthology more info
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in fibrillar center	IEA Inferred from Electronic Annotation more info
located_in fibrillar center	ISO Inferred from Sequence Orthology more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in midbody	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tyrosine-protein phosphatase non-receptor type 13

Names: protein Tyr phosphatase; tyrosine-protein phosphatase non-receptor type 13-like

NP_001094259.1

EC 3.1.3.48

XP_038948202.1

EC 3.1.3.48

XP_038948204.1

EC 3.1.3.48

XP_063129523.1

EC 3.1.3.48

XP_063129524.1

EC 3.1.3.48

XP_063129525.1

EC 3.1.3.48

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001100789.1 → NP_001094259.1 tyrosine-protein phosphatase non-receptor type 13

See identical proteins and their annotated locations for NP_001094259.1

Status: VALIDATED

Source sequence(s)

CH474022

UniProtKB/TrEMBL

A0A0G2K1K1, A6K5V1

Related

ENSRNOP00000071873.2, ENSRNOT00000087081.3

Conserved Domains (10) summary

smart00194
Location:2185 → 2437

PTPc; Protein tyrosine phosphatase, catalytic domain

smart00228
Location:1488 → 1578

PDZ; Domain present in PSD-95, Dlg, and ZO-1/2

smart00295
Location:566 → 774

B41; Band 4.1 homologues

smart00750
Location:3 → 190

KIND; kinase non-catalytic C-lobe domain

cd00047
Location:2211 → 2437

PTPc; Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr ...

cd00992
Location:1082 → 1166

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

pfam00373
Location:661 → 774

FERM_M; FERM central domain

pfam09379
Location:569 → 631

FERM_N; FERM N-terminal domain

pfam16599
Location:1168 → 1356

PTN13_u3; Unstructured linker region on PTN13 protein between PDZ

cl17171
Location:770 → 870

PH-like; Pleckstrin homology-like domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086032.1 Reference GRCr8

Range

6412841..6587238 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039092276.2 → XP_038948204.1 tyrosine-protein phosphatase non-receptor type 13 isoform X5

UniProtKB/TrEMBL

A0A8I6A6L8

Related

ENSRNOP00000087844.1, ENSRNOT00000119111.2

Conserved Domains (8) summary

smart00228
Location:1299 → 1389

PDZ; Domain present in PSD-95, Dlg, and ZO-1/2

smart00295
Location:566 → 774

B41; Band 4.1 homologues

smart00750
Location:3 → 190

KIND; kinase non-catalytic C-lobe domain

cd00992
Location:893 → 977

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cd17195
Location:564 → 659

FERM_F1_PTPN13; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in tyrosine-protein phosphatase non-receptor type 13 (PTPN13)

cd14597
Location:2022 → 2255

PTPc-N13; catalytic domain of tyrosine-protein phosphatase non-receptor type 13

pfam16599
Location:979 → 1167

PTN13_u3; Unstructured linker region on PTN13 protein between PDZ

cl17171
Location:770 → 870

PH-like; Pleckstrin homology-like domain
XM_063273454.1 → XP_063129524.1 tyrosine-protein phosphatase non-receptor type 13 isoform X3
XM_063273453.1 → XP_063129523.1 tyrosine-protein phosphatase non-receptor type 13 isoform X2

UniProtKB/TrEMBL

G3V9S3

Related

ENSRNOP00000057876.3, ENSRNOT00000061162.6
XM_039092274.2 → XP_038948202.1 tyrosine-protein phosphatase non-receptor type 13 isoform X1

UniProtKB/TrEMBL

A0A0G2K1K1

Conserved Domains (8) summary

smart00228
Location:1493 → 1583

PDZ; Domain present in PSD-95, Dlg, and ZO-1/2

smart00295
Location:566 → 774

B41; Band 4.1 homologues

smart00750
Location:3 → 190

KIND; kinase non-catalytic C-lobe domain

cd00992
Location:1082 → 1166

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cd17195
Location:564 → 659

FERM_F1_PTPN13; FERM (Four.1 protein, Ezrin, Radixin, Moesin) domain, F1 sub-domain, found in tyrosine-protein phosphatase non-receptor type 13 (PTPN13)

cd14597
Location:2216 → 2449

PTPc-N13; catalytic domain of tyrosine-protein phosphatase non-receptor type 13

pfam16599
Location:1168 → 1356

PTN13_u3; Unstructured linker region on PTN13 protein between PDZ

cl17171
Location:770 → 870

PH-like; Pleckstrin homology-like domain
XM_063273455.1 → XP_063129525.1 tyrosine-protein phosphatase non-receptor type 13 isoform X4

UniProtKB/TrEMBL

A0A8I5ZZK7

Related

ENSRNOP00000083228.2, ENSRNOT00000099356.2