ptpn13 protein tyrosine phosphatase non-receptor type 13 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: ptpn13provided by ZNC
Official Full Name: protein tyrosine phosphatase non-receptor type 13provided by ZNC
Primary source: ZFIN:ZDB-GENE-070410-72
See related: Ensembl:ENSDARG00000103699 AllianceGenome:ZFIN:ZDB-GENE-070410-72
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: wu:fb50g04; zgc:162319
Summary: Predicted to enable phosphatidylinositol 3-kinase regulatory subunit binding activity and protein tyrosine phosphatase activity. Predicted to be involved in negative regulation of excitatory synapse assembly and regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction. Predicted to act upstream of or within protein dephosphorylation. Predicted to be located in cytoskeleton. Predicted to be active in cytoplasm and nucleus. Is expressed in ovary. 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, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 21

Exon count:: 50

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	21	NC_007132.7 (9387264..9570894, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	21	NC_007132.6 (9294531..9469563, complement)

Chromosome 21 - NC_007132.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

AI477226 (e-PCR)
- UniSTS:206506

fb50g04.x1 (e-PCR)
- UniSTS:190645

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables hydrolase activity	IEA Inferred from Electronic Annotation more info
enables phosphoprotein phosphatase activity	IEA Inferred from Electronic Annotation more info
enables protein tyrosine phosphatase activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within dephosphorylation	IEA Inferred from Electronic Annotation more info
involved_in developmental process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein dephosphorylation	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info

General protein information

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

Names: protein-tyrosine phosphatase BAS

NP_001083012.2

EC 3.1.3.48

XP_005161523.1

EC 3.1.3.48

XP_009293438.1

EC 3.1.3.48

XP_068072003.1

EC 3.1.3.48

XP_068072004.1

EC 3.1.3.48

XP_068072005.1

EC 3.1.3.48

XP_068072006.1

EC 3.1.3.48

XP_068072008.1

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_001089543.2 → NP_001083012.2 tyrosine-protein phosphatase non-receptor type 13

Status: VALIDATED

Source sequence(s)

CR628389, CR678270, CU571388

UniProtKB/TrEMBL

A0A0R4IPR0, A0A0R4IWH3, A0A8M1NEH2, A0A8M3AWM5

Related

ENSDARP00000139515.1, ENSDART00000163874.2

Conserved Domains (9) summary

smart00194
Location:2053 → 2304

PTPc; Protein tyrosine phosphatase, catalytic domain

smart00295
Location:558 → 762

B41; Band 4.1 homologues

cd00047
Location:2077 → 2304

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:1056 → 1140

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) ...

cd13187
Location:758 → 858

FERM_C_PTPH13; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor 13 (PTPH13)

pfam00373
Location:649 → 762

FERM_M; FERM central domain

pfam09379
Location:558 → 620

FERM_N; FERM N-terminal domain

pfam16599
Location:1142 → 1319

PTN13_u3; Unstructured linker region on PTN13 protein between PDZ

cl21453
Location:3 → 178

PKc_like; Protein Kinases, catalytic domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007132.7 Reference GRCz11 Primary Assembly

Range

9387264..9570894 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_068215907.1 → XP_068072008.1 tyrosine-protein phosphatase non-receptor type 13 isoform X7

UniProtKB/TrEMBL

A0A8M3ALY6
XM_068215904.1 → XP_068072005.1 tyrosine-protein phosphatase non-receptor type 13 isoform X3

UniProtKB/TrEMBL

A0A8M3ALY6
XM_068215905.1 → XP_068072006.1 tyrosine-protein phosphatase non-receptor type 13 isoform X5

UniProtKB/TrEMBL

A0A8M3AL92
XM_068215903.1 → XP_068072004.1 tyrosine-protein phosphatase non-receptor type 13 isoform X2

UniProtKB/TrEMBL

A0A0R4IPR0, A0A8M3AWM5
XM_068215902.1 → XP_068072003.1 tyrosine-protein phosphatase non-receptor type 13 isoform X1

UniProtKB/TrEMBL

A0A0R4IPR0, A0A8M3AWM5
XM_009295163.4 → XP_009293438.1 tyrosine-protein phosphatase non-receptor type 13 isoform X6

UniProtKB/TrEMBL

A0A8M3ALY6, A0A8M3ATM7

Conserved Domains (10) summary

smart00194
Location:2196 → 2447

PTPc; Protein tyrosine phosphatase, catalytic domain

smart00228
Location:1300 → 1391

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

smart00295
Location:560 → 764

B41; Band 4.1 homologues

cd00047
Location:2220 → 2447

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:1038 → 1122

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) ...

cd13187
Location:760 → 860

FERM_C_PTPH13; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor 13 (PTPH13)

pfam00373
Location:651 → 764

FERM_M; FERM central domain

pfam09379
Location:560 → 622

FERM_N; FERM N-terminal domain

pfam16599
Location:1124 → 1301

PTN13_u3; Unstructured linker region on PTN13 protein between PDZ

cl21453
Location:3 → 180

PKc_like; Protein Kinases, catalytic domain
XM_005161466.5 → XP_005161523.1 tyrosine-protein phosphatase non-receptor type 13 isoform X4

UniProtKB/TrEMBL

A0A0R4IPR0, A0A8M2B8N1, A0A8M3AWM5

Related

ENSDARP00000136300.1, ENSDART00000162225.2

Conserved Domains (10) summary

smart00194
Location:2216 → 2467

PTPc; Protein tyrosine phosphatase, catalytic domain

smart00228
Location:1320 → 1411

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

smart00295
Location:560 → 764

B41; Band 4.1 homologues

cd00047
Location:2240 → 2467

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:1058 → 1142

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) ...

cd13187
Location:760 → 860

FERM_C_PTPH13; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor 13 (PTPH13)

pfam00373
Location:651 → 764

FERM_M; FERM central domain

pfam09379
Location:560 → 622

FERM_N; FERM N-terminal domain

pfam16599
Location:1144 → 1321

PTN13_u3; Unstructured linker region on PTN13 protein between PDZ

cl21453
Location:3 → 180

PKc_like; Protein Kinases, catalytic domain