Sfpq splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated) [Mus musculus (house mouse)] - Gene

Summary

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Official Symbol: Sfpqprovided by MGI
Official Full Name: splicing factor proline/glutamine rich (polypyrimidine tract binding protein associated)provided by MGI
Primary source: MGI:1918764
Locus tag: RP23-153M14.2
See related: Ensembl:ENSMUSG00000028820; Vega:OTTMUSG00000009316
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: PSF; REP1; Gm12940; AU021830; D4Ertd314e; 1110004P21Rik; 2810416M14Rik; 5730453G22Rik; 9030402K04Rik; OTTMUSG00000009329

Genomic context

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Location :: 4 D2.2; 4 61.21 cM

Sequence :: Chromosome: 4; NC_000070.6 (127021301..127037014)

See Sfpq in Epigenomics, MapViewer

Chromosome 4 - NC_000070.6 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence

Go to nucleotideGraphics FASTA GenBank

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Bibliography

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GeneRIFs: Gene References Into Functions What's a GeneRIF?

PSF contributes to the stability of a subset of histone genes and that loss of H2AE expression in the PSF-deficient thymocytes uniquely contributes to an increase in thymic apoptosis.
Title: PSF controls expression of histone variants and cellular viability in thymocytes.
analysis indicates PSF within the PER complex recruits SIN3A, a scaffold for assembly of transcriptional inhibitory complexes, and the PER complex thereby rhythmically delivers histone deacetylases to the Per1 promoter, which repress Per1 transcription
Title: A molecular mechanism for circadian clock negative feedback.
Basal and cyclic AMP-induced Rbp4 transcription is regulated by a multiprotein complex that is similar to ones that modulate expression of genes of steroid hormone biosynthesis.
Title: Transcriptional activity of the murine retinol-binding protein gene is regulated by a multiprotein complex containing HMGA1, p54 nrb/NonO, protein-associated splicing factor (PSF) and steroidogenic factor 1 (SF1)/liver receptor homologue 1 (LRH-1).
PSF binds to the proto-oncogene Rab23, repressing transcription
Title: Regulation of proto-oncogene transcription, cell proliferation, and tumorigenesis in mice by PSF protein and a VL30 noncoding RNA.
These data from zebrafish indicate that, in vertebrates, sfpq plays a key role in neuronal development and is essential for normal brain development.
Title: Whitesnake/sfpq is required for cell survival and neuronal development in the zebrafish.
PSPC1, NONO, and SFPQ form complexes with each other in Sertoli cells and may regulate androgen receptor-mediated transcriptional activity
Title: PSPC1, NONO, and SFPQ are expressed in mouse Sertoli cells and may function as coregulators of androgen receptor-mediated transcription.
Hippocampal mRNA expression of Psf is up-regulated during contextual fear memory formation in both sexes as a specific result of the context/tone-shock association. Changes in splicing factor expression during LTM formation regulate alternative splicing.
Title: Sex-dependent up-regulation of two splicing factors, Psf and Srp20, during hippocampal memory formation.
identified as a protein kinase Calpha-binding protein in the cell nucleus
Title: Identification of PSF as a protein kinase Calpha-binding protein in the cell nucleus.

Submit: New GeneRIF Correction

Alleles

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Alleles of this type are documented at Mouse Genome Informatics (MGI)

Gene trapped (1)

Interactions

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Products	Interactant	Other Gene	Source	Pubs	Description
NP_076092.1	NP_031805.1	Csf1r	BIND	PubMed	CSF-1 receptor interacts with PSF.
BioGRID:214752	BioGRID:204339	Ctr9	BioGRID	PubMed	Affinity Capture-MS
BioGRID:214752	BioGRID:202111	Per1	BioGRID	PubMed	Affinity Capture-MS
BioGRID:214752	BioGRID:202112	Per2	BioGRID	PubMed	Affinity Capture-MS; Affinity Capture-Western
BioGRID:214752	BioGRID:202586	Rara	BioGRID	PubMed	Affinity Capture-MS; Affinity Capture-Western
BioGRID:214752	BioGRID:203256	Sin3a	BioGRID	PubMed	Affinity Capture-Western
BioGRID:214752	BioGRID:211982	Smarca2	BioGRID	PubMed	Affinity Capture-MS
BioGRID:214752	BioGRID:203336	Smarca4	BioGRID	PubMed	Affinity Capture-MS
BioGRID:214752	BioGRID:204619	Ywhae	BioGRID	PubMed	Affinity Capture-MS
BioGRID:214752	BioGRID:204623	Ywhaz	BioGRID	PubMed	Affinity Capture-MS

Pathways from BioSystems

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mRNA processing, organism-specific biosystem (from WikiPathways)
mRNA processing, organism-specific biosystemAdapted from Reactome, see: [http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=REACT_1675.1 REACT 1675.1] This process describes the conversion of precursor messenger RNA into mature messenge...

General gene information

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Markers

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

AU021830 (e-PCR)
- UniSTS:207683

AW209050 (e-PCR)
- UniSTS:179069

RH139231 (e-PCR)
- UniSTS:221317

RH136628 (e-PCR)
- UniSTS:210608

RH126927 (e-PCR)
- UniSTS:167386

Homology

Homologs of the Sfpq gene: The Sfpq gene is conserved in human, dog, cow, rat, chicken, zebrafish, fruit fly, and mosquito.
Map Viewer (Human, Rat)
OrthoDB: The Hierarchical Catalog of Eukaryotic Orthologs

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
DNA binding	IEA Inferred from Electronic Annotation more info
RNA binding	IEA Inferred from Electronic Annotation more info
nucleic acid binding	IEA Inferred from Electronic Annotation more info
nucleotide binding	IEA Inferred from Electronic Annotation more info
protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
DNA repair	IEA Inferred from Electronic Annotation more info
RNA splicing	IEA Inferred from Electronic Annotation more info
alternative mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info
mRNA processing	IEA Inferred from Electronic Annotation more info
negative regulation of transcription from RNA polymerase II promoter	ISO Inferred from Sequence Orthology more info
regulation of transcription, DNA-dependent	IEA Inferred from Electronic Annotation more info
response to DNA damage stimulus	IEA Inferred from Electronic Annotation more info
transcription, DNA-dependent	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
cytoplasm	IEA Inferred from Electronic Annotation more info
nuclear matrix	ISO Inferred from Sequence Orthology more info
nucleoplasm	ISO Inferred from Sequence Orthology more info
nucleus	IEA Inferred from Electronic Annotation more info
paraspeckles	ISO Inferred from Sequence Orthology more info

General protein information

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

Names: splicing factor, proline- and glutamine-rich; PTB-associated splicing factor; PTB-associated-splicing factor; DNA-binding p52/p100 complex, 100 kDa subunit; polypyrimidine tract-binding protein-associated-splicing factor

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_023603.3 → NP_076092.1 splicing factor, proline- and glutamine-rich

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the functional protein.

Source sequence(s)

AV137948, AW048189, BC089305, CJ067342

Consensus CDS

CCDS18662.1

UniProtKB/Swiss-Prot

Q8VIJ6

Related

ENSMUSP00000030623, OTTMUSP00000009684, ENSMUST00000030623, OTTMUST00000021160

Conserved Domains (2) summary

cd00590
Location:290 – 358
Blast Score: 187

RRM; RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA ...

pfam08075
Location:436 – 487
Blast Score: 250

NOPS; NOPS (NUC059) domain

RNA

NR_045010.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (2) lacks an exon and includes three alternate 3' exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

BC080848, BM246211, CA319647, CJ067342, CJ304628

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 103

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

Reference GRCm38.p1 C57BL/6J

Genomic

NC_000070.6 Reference GRCm38.p1 C57BL/6J

Range

127021301..127037014

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Mm_Celera

Genomic

AC_000026.1 Alternate Mm_Celera

Range

125355661..125371298

Download

GenBank, FASTA, Sequence Viewer (Graphics)

Nucleotide		Protein	Strain
Heading	Accession and Version	Protein	Strain
genomic	AAHY01040142.1 (10582..10760)	None
genomic	AAHY01040143.1	None
genomic	AL606985.26 (74537..90250)	None
mRNA	AF110499.1	AAC98392.1
mRNA	AF272847.1	AAG17365.1
mRNA	AK003449.1	None	C57BL/6J
mRNA	AK017658.1	None	C57BL/6J
mRNA	AK018483.1	None	C57BL/6J
mRNA	AK019262.1	None	C57BL/6J
mRNA	AK031234.1	None	C57BL/6J
mRNA	AK141302.1	None	C57BL/6J
mRNA	AK157783.1	BAE34196.1	C57BL/6J
mRNA	AK179158.1	None
mRNA	AK180570.1	None
mRNA	AK191209.1	None
mRNA	AK192184.1	None
mRNA	AK198254.1	None
mRNA	AK210812.1	None
mRNA	AK211103.1	None
mRNA	AK211570.1	None
mRNA	AK211676.1	None
mRNA	AK214936.1	None
mRNA	AK216272.1	None
mRNA	AK217233.1	None
mRNA	AK219185.1	None
mRNA	AV137948.2	None	C57BL/6J
mRNA	AW048189.1	None	C57BL/6J
mRNA	AY034062.1	AAK60397.1
mRNA	BC033603.1	None
mRNA	BC037486.1	None	FVB/N
mRNA	BC049227.1	AAH49227.1	CZECHII
mRNA	BC055468.1	AAH55468.1	CZECHII
mRNA	BC080848.1	None	C57BL/6
mRNA	BC089305.1	AAH89305.1	C57BL/6
mRNA	BM246211.2	None	C57BL/6NCrl
mRNA	CA319647.1	None	C57BL/6
mRNA	CJ067342.1	None	C57BL/6J
mRNA	CJ304628.1	None