Ptpn3 protein tyrosine phosphatase, non-receptor type 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ptpn3provided by RGD
Official Full Name: protein tyrosine phosphatase, non-receptor type 3provided by RGD
Primary source: RGD:1311363
See related: EnsemblRapid:ENSRNOG00000011425 AllianceGenome:RGD:1311363
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 several functions, including ATPase binding activity; phosphotyrosine residue binding activity; and sodium channel regulator activity. Involved in liver regeneration. Predicted to be located in cytoskeleton. Predicted to be active in cytoplasm and cytoplasmic side of plasma membrane. Orthologous to human PTPN3 (protein tyrosine phosphatase non-receptor type 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Heart (RPKM 122.7), Muscle (RPKM 120.1) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q24

Exon count:: 31

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (76703687..76822584, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (71908520..72027323, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (74248996..74368167, complement)

Chromosome 5 - NC_086023.1 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?

Submit: New GeneRIF Correction

General gene information

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Markers

AU049242 (e-PCR)
- UniSTS:145690

D5Rat182 (e-PCR), detects polymorphism
- UniSTS:227886

RH141861 (e-PCR)
- UniSTS:223853

RH132655 (e-PCR)
- UniSTS:215938

d5mit17 (e-PCR)
- UniSTS:122069

AI555271 (e-PCR)
- UniSTS:261872

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATPase binding	ISO Inferred from Sequence Orthology more info
enables cytoskeletal protein binding	IEA Inferred from Electronic Annotation more info
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 phosphotyrosine residue 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
enables sodium channel regulator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in chromatin remodeling	IEA Inferred from Electronic Annotation more info
involved_in liver regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of membrane protein ectodomain proteolysis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in protein dephosphorylation	ISO Inferred from Sequence Orthology more info
involved_in regulation of membrane depolarization during action potential	ISO Inferred from Sequence Orthology more info
involved_in regulation of sodium ion transmembrane transporter activity	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

General protein information

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Preferred Names: tyrosine-protein phosphatase non-receptor type 3

NP_001094224.1

EC 3.1.3.48

XP_001059757.1

EC 3.1.3.48

XP_008761962.1

EC 3.1.3.48

XP_017449225.1

EC 3.1.3.48

XP_038966966.1

EC 3.1.3.48

XP_063144002.1

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_001100754.1 → NP_001094224.1 tyrosine-protein phosphatase non-receptor type 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A0A8I5YBL2

Related

ENSRNOP00000077016.2, ENSRNOT00000104839.2

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_086023.1 Reference GRCr8

Range

76703687..76822584 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017593736.3 → XP_017449225.1 tyrosine-protein phosphatase non-receptor type 3 isoform X3

UniProtKB/TrEMBL

A0A8I5YBL2

Conserved Domains (4) summary

smart00295
Location:30 → 222

B41; Band 4.1 homologues

cd00992
Location:508 → 595

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 → 309

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

cd14600
Location:631 → 904

PTPc-N3; catalytic domain of tyrosine-protein phosphatase non-receptor type 3
XM_001059757.6 → XP_001059757.1 tyrosine-protein phosphatase non-receptor type 3 isoform X1

See identical proteins and their annotated locations for XP_001059757.1

UniProtKB/TrEMBL

A0A096MJA1, A6KDS9, F1LQQ5

Related

ENSRNOP00000068252.3, ENSRNOT00000076705.3

Conserved Domains (7) summary

smart00194
Location:754 → 1005

PTPc; Protein tyrosine phosphatase, catalytic domain

smart00295
Location:135 → 327

B41; Band 4.1 homologues

cd00047
Location:777 → 1004

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:613 → 700

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:321 → 414

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

pfam00373
Location:220 → 327

FERM_M; FERM central domain

pfam09379
Location:138 → 201

FERM_N; FERM N-terminal domain
XM_063287932.1 → XP_063144002.1 tyrosine-protein phosphatase non-receptor type 3 isoform X2

UniProtKB/TrEMBL

A0A8I5YBL2

Related

ENSRNOP00000101241.1, ENSRNOT00000158623.1
XM_039111038.2 → XP_038966966.1 tyrosine-protein phosphatase non-receptor type 3 isoform X3

UniProtKB/TrEMBL

A0A8I5YBL2

Conserved Domains (4) summary

smart00295
Location:30 → 222

B41; Band 4.1 homologues

cd00992
Location:508 → 595

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 → 309

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

cd14600
Location:631 → 904

PTPc-N3; catalytic domain of tyrosine-protein phosphatase non-receptor type 3
XM_008763740.4 → XP_008761962.1 tyrosine-protein phosphatase non-receptor type 3 isoform X4

See identical proteins and their annotated locations for XP_008761962.1

Conserved Domains (4) summary

smart00194
Location:417 → 668

PTPc; Protein tyrosine phosphatase, catalytic domain

cd00047
Location:440 → 667

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:276 → 363

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) ...

cl17171
Location:1 → 77

PH-like; Pleckstrin homology-like domain