Ptpn4 protein tyrosine phosphatase, non-receptor type 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ptpn4provided by RGD
Official Full Name: protein tyrosine phosphatase, non-receptor type 4provided by RGD
Primary source: RGD:620712
See related: EnsemblRapid:ENSRNOG00000002625 AllianceGenome:RGD:620712
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
Summary: Predicted to enable glutamate receptor binding activity and non-membrane spanning protein tyrosine phosphatase activity. Predicted to be involved in chromatin remodeling. Predicted to act upstream of or within peptidyl-tyrosine phosphorylation. Predicted to be located in membrane. Predicted to be active in cytoplasm and cytoplasmic side of plasma membrane. Orthologous to human PTPN4 (protein tyrosine phosphatase non-receptor type 4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 272.4), Adrenal (RPKM 179.3) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 13q11

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (33324808..33504957, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (30772012..30952340, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (35678240..35858414, complement)

Chromosome 13 - NC_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

The overexpression of miR-181c-5p significantly attenuated the mRNA and protein expression of PTPN4 in H9C2 cardiomyocytes.
Title: miR-181c-5p Exacerbates Hypoxia/Reoxygenation-Induced Cardiomyocyte Apoptosis via Targeting PTPN4.

Submit: New GeneRIF Correction

General gene information

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Markers

BE199656 (e-PCR)
- UniSTS:207199

RH131441 (e-PCR)
- UniSTS:214724

D13Mco4 (e-PCR)
- UniSTS:239836

RH143699 (e-PCR)
- UniSTS:232945

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cytoskeletal protein binding	IEA Inferred from Electronic Annotation more info
enables glutamate receptor binding	ISO Inferred from Sequence Orthology more info
enables histone H2AXY142 phosphatase activity	IEA Inferred from Electronic Annotation more info
enables non-membrane spanning protein tyrosine phosphatase activity	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, metal-dependent	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasmic side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: tyrosine-protein phosphatase non-receptor type 4

NP_001093949.1

EC 3.1.3.48

XP_017454155.1

EC 3.1.3.48

XP_017454156.1

EC 3.1.3.48

XP_038946250.1

EC 3.1.3.48

XP_038946253.1

EC 3.1.3.48

XP_038946256.1

EC 3.1.3.48

XP_038946257.1

EC 3.1.3.48

XP_038946258.1

EC 3.1.3.48

XP_063128090.1

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_001100479.3 → NP_001093949.1 tyrosine-protein phosphatase non-receptor type 4

See identical proteins and their annotated locations for NP_001093949.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000013

UniProtKB/TrEMBL

A6K7X3

Related

ENSRNOP00000110591.1, ENSRNOT00000128477.1

Conserved Domains (5) summary

smart00295
Location:30 → 222

B41; Band 4.1 homologues

cd00992
Location:515 → 602

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) ...

cd13189
Location:216 → 310

FERM_C_PTPN4_PTPN3_like; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor proteins 3 and 4 (PTPN4 and PTPN3)

pfam08736
Location:323 → 365

FA; FERM adjacent (FA)

cl28904
Location:641 → 914

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily

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_086031.1 Reference GRCr8

Range

33324808..33504957 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063272020.1 → XP_063128090.1 tyrosine-protein phosphatase non-receptor type 4 isoform X4

UniProtKB/TrEMBL

A0A8I6A599

Related

ENSRNOP00000088009.1, ENSRNOT00000095537.2
XM_017598667.3 → XP_017454156.1 tyrosine-protein phosphatase non-receptor type 4 isoform X3
XM_017598666.3 → XP_017454155.1 tyrosine-protein phosphatase non-receptor type 4 isoform X1

UniProtKB/TrEMBL

G3V6B9

Related

ENSRNOP00000003568.6, ENSRNOT00000003568.9

Conserved Domains (5) summary

smart00295
Location:30 → 229

B41; Band 4.1 homologues

cd00992
Location:522 → 609

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) ...

cd13189
Location:223 → 317

FERM_C_PTPN4_PTPN3_like; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor proteins 3 and 4 (PTPN4 and PTPN3)

pfam08736
Location:330 → 372

FA; FERM adjacent (FA)

cl28904
Location:648 → 921

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_039090322.2 → XP_038946250.1 tyrosine-protein phosphatase non-receptor type 4 isoform X1

UniProtKB/TrEMBL

G3V6B9

Conserved Domains (5) summary

smart00295
Location:30 → 229

B41; Band 4.1 homologues

cd00992
Location:522 → 609

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) ...

cd13189
Location:223 → 317

FERM_C_PTPN4_PTPN3_like; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor proteins 3 and 4 (PTPN4 and PTPN3)

pfam08736
Location:330 → 372

FA; FERM adjacent (FA)

cl28904
Location:648 → 921

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_039090329.1 → XP_038946257.1 tyrosine-protein phosphatase non-receptor type 4 isoform X6

Conserved Domains (4) summary

cd00992
Location:269 → 356

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) ...

pfam08736
Location:77 → 119

FA; FERM adjacent (FA)

cl17171
Location:10 → 64

PH-like; Pleckstrin homology-like domain

cl28904
Location:395 → 668

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_039090330.2 → XP_038946258.1 tyrosine-protein phosphatase non-receptor type 4 isoform X6

Conserved Domains (4) summary

cd00992
Location:269 → 356

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) ...

pfam08736
Location:77 → 119

FA; FERM adjacent (FA)

cl17171
Location:10 → 64

PH-like; Pleckstrin homology-like domain

cl28904
Location:395 → 668

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_039090328.2 → XP_038946256.1 tyrosine-protein phosphatase non-receptor type 4 isoform X5

Conserved Domains (5) summary

smart00295
Location:18 → 55

B41; Band 4.1 homologues

cd00992
Location:348 → 435

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) ...

cd13189
Location:49 → 143

FERM_C_PTPN4_PTPN3_like; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor proteins 3 and 4 (PTPN4 and PTPN3)

pfam08736
Location:156 → 198

FA; FERM adjacent (FA)

cl28904
Location:474 → 747

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_039090325.2 → XP_038946253.1 tyrosine-protein phosphatase non-receptor type 4 isoform X2

Related

ENSRNOP00000100519.1, ENSRNOT00000160454.1

Conserved Domains (5) summary

smart00295
Location:30 → 229

B41; Band 4.1 homologues

cd00992
Location:522 → 609

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) ...

cd13189
Location:223 → 317

FERM_C_PTPN4_PTPN3_like; FERM domain C-lobe of Protein tyrosine phosphatase non-receptor proteins 3 and 4 (PTPN4 and PTPN3)

pfam08736
Location:330 → 372

FA; FERM adjacent (FA)

cl28904
Location:648 → 904

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily