Sfpq splicing factor proline and glutamine rich [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Sfpqprovided by RGD
Official Full Name: splicing factor proline and glutamine richprovided by RGD
Primary source: RGD:727923
See related: Ensembl:ENSRNOG00000058461 AllianceGenome:RGD:727923
Gene type: protein coding
RefSeq status: PROVISIONAL
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 chromatin binding activity; histone deacetylase binding activity; and protein homodimerization activity. Predicted to be involved in several processes, including alternative mRNA splicing, via spliceosome; dendritic transport of messenger ribonucleoprotein complex; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromosome organization; double-strand break repair via homologous recombination; and positive regulation of sister chromatid cohesion. Predicted to be located in chromatin; nuclear matrix; and paraspeckles. Predicted to be part of RNA polymerase II transcription regulator complex. Predicted to be active in nucleus. Orthologous to human SFPQ (splicing factor proline and glutamine rich). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 419.3), Spleen (RPKM 366.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (144621678..144637930)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (139338034..139353476)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (145079803..145088517)

Chromosome 5 - NC_086023.1 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?

Induced pluripotent stem cell-derived extracellular vesicles overexpressing SFPQ protect retinal Muller cells against hypoxia-induced injury.
Title: Induced pluripotent stem cell-derived extracellular vesicles overexpressing SFPQ protect retinal Müller cells against hypoxia-induced injury.
Quantitative proteomics reveals dynamic interaction of JNK with RNA transport granule proteins Sfpq and Nono during neuronal differentiation
Title: Quantitative proteomics reveals dynamic interaction of c-Jun N-terminal kinase (JNK) with RNA transport granule proteins splicing factor proline- and glutamine-rich (Sfpq) and non-POU domain-containing octamer-binding protein (Nono) during neuronal differentiation.
Decreased PSF at term may result in a de-repression of progesterone receptor transcriptional control of contraction associated protein genes and thereby contributes to a functional withdrawal of progesterone at term labor.
Title: Expression and function of myometrial PSF suggest a role in progesterone withdrawal and the initiation of labor.
NONO and SFPQ were functionally involved in circadian Prl transcription since overexpression of both proteins greatly reduced Prl promoter activity (P<0.001) and disrupted its circadian pattern.
Title: Chromatin remodeling as a mechanism for circadian prolactin transcription: rhythmic NONO and SFPQ recruitment to HLTF.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Sfpq (e-PCR), detects polymorphism
- UniSTS:479037

RH139231 (e-PCR)
- UniSTS:221317

RH126927 (e-PCR)
- UniSTS:167386

RH129398 (e-PCR)
- UniSTS:212705

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables chromatin binding	ISO Inferred from Sequence Orthology more info
enables histone deacetylase binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA damage response	ISO Inferred from Sequence Orthology more info
involved_in activation of innate immune response	ISO Inferred from Sequence Orthology more info
involved_in alternative mRNA splicing, via spliceosome	IBA Inferred from Biological aspect of Ancestor more info
involved_in alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
involved_in chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within chromosome organization	ISO Inferred from Sequence Orthology more info
involved_in dendritic transport of messenger ribonucleoprotein complex	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within double-strand break repair via homologous recombination	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of circadian rhythm	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of oxidative stress-induced intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of sister chromatid cohesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of circadian rhythm	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of RNA polymerase II transcription regulator complex	ISO Inferred from Sequence Orthology more info
part_of chromatin	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite cytoplasm	ISO Inferred from Sequence Orthology more info
located_in nuclear matrix	ISO Inferred from Sequence Orthology 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 paraspeckles	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: splicing factor, proline- and glutamine-rich

Names: NonO/p54nrb homolog; splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated); splicing factor proline/glutamine-rich

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_001025271.1 → NP_001020442.1 splicing factor, proline- and glutamine-rich

See identical proteins and their annotated locations for NP_001020442.1

Status: PROVISIONAL

Source sequence(s)

BC098731

UniProtKB/TrEMBL

A0A0G2K8K0, A0A8I6GFD8, Q4KM71

Related

ENSRNOP00000074636.2, ENSRNOT00000084202.2

Conserved Domains (4) summary

PRK12704
Location:478 → 586

PRK12704; phosphodiesterase; Provisional

cd12948
Location:434 → 530

NOPS_PSF; NOPS domain, including C-terminal coiled-coil region, in polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF) and similar proteins

cd12587
Location:288 → 358

RRM1_PSF; RNA recognition motif 1 (RRM1) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)

cd12590
Location:364 → 443

RRM2_PSF; RNA recognition motif 2 (RRM2) found in vertebrate polypyrimidine tract-binding protein (PTB)-associated-splicing factor (PSF)