Sf3a1 splicing factor 3a, subunit 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Sf3a1provided by MGI
Official Full Name: splicing factor 3a, subunit 1provided by MGI
Primary source: MGI:MGI:1914715
See related: Ensembl:ENSMUSG00000002129 AllianceGenome:MGI:1914715
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: 1200014H24Rik; 5930416L09Rik
Summary: Predicted to enable RNA binding activity. Predicted to be involved in U2-type prespliceosome assembly. Predicted to act upstream of or within RNA splicing. Predicted to be located in nuclear speck. Predicted to be part of U2 snRNP and spliceosomal complex. Is expressed in central nervous system and sensory organ. Orthologous to human SF3A1 (splicing factor 3a subunit 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in CNS E11.5 (RPKM 27.8), thymus adult (RPKM 22.6) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 A1; 11 2.91 cM

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (4110354..4132541)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (4160354..4182541)

Chromosome 11 - NC_000077.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

once inside the nucleus, P2X6 subunit interacts with the splicing factor 3A1, which ultimately results in a reduction of the mRNA splicing activity
Title: Age-related nuclear translocation of P2X6 subunit modifies splicing activity interacting with splicing factor 3A1.
in macrophages, SF3a has significant preference for mRNA splicing events within innate immune signaling pathways compared with other biological pathways, thereby affecting the splicing of specific genes in the TLR signaling pathway
Title: Regulation of toll-like receptor signaling by the SF3a mRNA splicing complex.

Submit: New GeneRIF Correction

Variation

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Alleles

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

Endonuclease-mediated (1)
Transgenic (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI159724 (e-PCR)
- UniSTS:185859

Sf3a1 (e-PCR), detects polymorphism
- UniSTS:479035

NoName (e-PCR)
- UniSTS:236497

NoName (e-PCR)
- UniSTS:236499

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in RNA processing	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within RNA splicing	IEA Inferred from Electronic Annotation more info
involved_in U2-type prespliceosome assembly	ISO Inferred from Sequence Orthology more info
involved_in mRNA cis splicing, via spliceosome	IEA Inferred from Electronic Annotation more info
involved_in mRNA processing	ISO Inferred from Sequence Orthology more info
involved_in mRNA splicing, via spliceosome	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of U2 snRNP	IBA Inferred from Biological aspect of Ancestor more info
part_of U2 snRNP	ISO Inferred from Sequence Orthology more info
part_of U2-type precatalytic spliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type prespliceosome	IBA Inferred from Biological aspect of Ancestor more info
part_of U2-type prespliceosome	ISO Inferred from Sequence Orthology more info
part_of U2-type spliceosomal complex	ISO Inferred from Sequence Orthology more info
part_of catalytic step 2 spliceosome	IBA Inferred from Biological aspect of Ancestor more info
part_of catalytic step 2 spliceosome	ISO Inferred from Sequence Orthology more info
located_in nuclear speck	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
part_of spliceosomal complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: splicing factor 3A subunit 1

Names: SF3a120; splicing factor 3 subunit 1

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_026175.5 → NP_080451.4 splicing factor 3A subunit 1

See identical proteins and their annotated locations for NP_080451.4

Status: VALIDATED

Source sequence(s)

AI115048, AK028829, AK030115, AK160061, AL807825

Consensus CDS

CCDS24380.1

UniProtKB/Swiss-Prot

Q8C0M7, Q8C128, Q8C175, Q8K4Z5, Q921T3

UniProtKB/TrEMBL

Q3TVM1

Related

ENSMUSP00000002198.4, ENSMUST00000002198.4

Conserved Domains (4) summary

cd01800
Location:716 → 791

SF3a120_C; Ubiquitin-like domain of Mammalian splicing factor SF3a_120

smart00648
Location:50 → 103

SWAP; Suppressor-of-White-APricot splicing regulator

pfam01805
Location:165 → 215

Surp; Surp module

pfam12230
Location:232 → 470

PRP21_like_P; Pre-mRNA splicing factor PRP21 like protein