Ssh1 slingshot protein phosphatase 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ssh1provided by RGD
Official Full Name: slingshot protein phosphatase 1provided by RGD
Primary source: RGD:1306038
See related: Ensembl:ENSRNOG00000000695 AllianceGenome:RGD:1306038
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 actin binding activity and phosphoprotein phosphatase activity. Involved in several processes, including excitatory chemical synaptic transmission; modulation of chemical synaptic transmission; and positive regulation of AMPA glutamate receptor clustering. Located in cell leading edge; cytosol; and growth cone. Orthologous to human SSH1 (slingshot protein phosphatase 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 60.1), Spleen (RPKM 39.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (48281756..48343812)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (42621127..42683262)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (48403184..48447964)

Chromosome 12 - NC_086030.1 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?

The regulation of VSMC migration by cofilin is SSH1 dependent and that this mechanism potentially contributes to neointima formation following vascular injury in vivo.
Title: Slingshot isoform-specific regulation of cofilin-mediated vascular smooth muscle cell migration and neointima formation.
uppressing endogenous Slingshot with small RNA interference or function-blocking antibody led to a dramatic reduction of AMPA receptor-mediated excitatory postsynaptic currents
Title: Regulation of AMPA receptor channels and synaptic plasticity by cofilin phosphatase Slingshot in cortical neurons.

Submit: New GeneRIF Correction

General gene information

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Markers

RH140699 (e-PCR)
- UniSTS:222766

BI275132 (e-PCR)
- UniSTS:249565

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin binding	IBA Inferred from Biological aspect of Ancestor more info
enables actin binding	ISO Inferred from Sequence Orthology more info
enables myosin phosphatase activity	IEA Inferred from Electronic Annotation more info
enables phosphoprotein phosphatase activity	IBA Inferred from Biological aspect of Ancestor more info
enables phosphoprotein phosphatase activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in actin cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in cell morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to ATP	ISO Inferred from Sequence Orthology more info
involved_in excitatory chemical synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of actin filament polymerization	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of AMPA glutamate receptor clustering	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of excitatory postsynaptic potential	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of vascular associated smooth muscle cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of protein metabolic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell leading edge	IDA Inferred from Direct Assay more info	PubMed
located_in cell projection	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 growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: protein phosphatase Slingshot homolog 1

Names: slingshot 1; slingshot homolog 1

NP_001414408.1

EC 3.1.3.16

EC 3.1.3.48

XP_006249573.2

EC 3.1.3.16

EC 3.1.3.48

XP_038946125.1

EC 3.1.3.16

EC 3.1.3.48

XP_038946127.1

EC 3.1.3.16

EC 3.1.3.48

XP_063127473.1

EC 3.1.3.16

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_001427479.2 → NP_001414408.1 protein phosphatase Slingshot homolog 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000012

UniProtKB/TrEMBL

A0A8I6B0P9

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_086030.1 Reference GRCr8

Range

48281756..48343812

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063271403.1 → XP_063127473.1 protein phosphatase Slingshot homolog 1 isoform X2

UniProtKB/TrEMBL

A0A8I6A2G7, F1LWM1
XM_039090197.2 → XP_038946125.1 protein phosphatase Slingshot homolog 1 isoform X1

UniProtKB/TrEMBL

F1LWM1

Conserved Domains (3) summary

cd11652
Location:10 → 223

SSH-N; N-terminal domain conserved in slingshot (SSH) phosphatases

pfam08766
Location:237 → 289

DEK_C; DEK C terminal domain

cl28904
Location:292 → 435

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_039090199.2 → XP_038946127.1 protein phosphatase Slingshot homolog 1 isoform X2

UniProtKB/TrEMBL

A0A8I6A2G7, F1LWM1

Related

ENSRNOP00000084683.1

Conserved Domains (3) summary

cd11652
Location:1 → 194

SSH-N; N-terminal domain conserved in slingshot (SSH) phosphatases

pfam08766
Location:208 → 260

DEK_C; DEK C terminal domain

cl28904
Location:263 → 406

PTP_DSP_cys; cys-based protein tyrosine phosphatase and dual-specificity phosphatase superfamily
XM_006249511.4 → XP_006249573.2 protein phosphatase Slingshot homolog 1 isoform X3

UniProtKB/TrEMBL

F1LWM1

Conserved Domains (3) summary

cd11652
Location:3 → 116

SSH-N; N-terminal domain conserved in slingshot (SSH) phosphatases

pfam08766
Location:130 → 182

DEK_C; DEK C terminal domain

cl28904
Location:185 → 328

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

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_001107154.1: Suppressed sequence

Description

NM_001107154.1: This RefSeq was suppressed temporarily based on the calculation that the encoded protein was shorter than proteins from the putative ortholog from human: SSH1 (GeneID:54434).