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SRSF1 serine and arginine rich splicing factor 1 [ Homo sapiens (human) ]

Gene ID: 6426, updated on 9-Aug-2020

Summary

Official Symbol
SRSF1provided by HGNC
Official Full Name
serine and arginine rich splicing factor 1provided by HGNC
Primary source
HGNC:HGNC:10780
See related
Ensembl:ENSG00000136450 MIM:600812
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
ASF; SF2; SFRS1; SF2p33; SRp30a
Summary
This gene encodes a member of the arginine/serine-rich splicing factor protein family. The encoded protein can either activate or repress splicing, depending on its phosphorylation state and its interaction partners. Multiple transcript variants have been found for this gene. There is a pseudogene of this gene on chromosome 13. [provided by RefSeq, Jun 2014]
Expression
Ubiquitous expression in lymph node (RPKM 44.8), appendix (RPKM 40.8) and 25 other tissues See more
Orthologs

Genomic context

See SRSF1 in Genome Data Viewer
Location:
17q22
Exon count:
5
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (58000919..58007346, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (56078280..56084707, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene CUE domain containing 1 Neighboring gene uncharacterized LOC107985065 Neighboring gene uncharacterized LOC101929185 Neighboring gene vascular endothelial zinc finger 1 Neighboring gene uncharacterized LOC105371840 Neighboring gene uncharacterized LOC101927666 Neighboring gene Sharpr-MPRA regulatory region 5901

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Tandem affinity purification and mass spectrometry analysis identify serine/arginine-rich splicing factor 1 (SRSF1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Gag-Pol gag-pol Tandem affinity purification and mass spectrometry analysis identify serine/arginine-rich splicing factor 1 (SRSF1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Nef nef Tandem affinity purification and mass spectrometry analysis identify serine/arginine-rich splicing factor 1 (SRSF1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
Pr55(Gag) gag Tandem affinity purification and mass spectrometry analysis identify serine/arginine-rich splicing factor 1 (SRSF1), HIV-1 Gag, Gag/Pol, gp120, and Nef incorporated into staufen1 RNP complexes isolated from HIV-1-expressing cells PubMed
gag ASF/SF2 binds to the cis enhancing sequence (CES) in the gp41 region and enhances Gag expression PubMed
Rev rev SF2/ASF has been shown to inhibit Rev function in a dose-dependent fashion PubMed
rev interaction of Rev with SF2/ASF is apparently mediated by complement component 1, q subcomponent binding protein (C1QBP, p32) which associates with SF2/ASF and binds to Rev PubMed
rev SF2/ASF binds to RRE RNA in a Rev-dependent manner, an interaction that is associated with Rev inhibition of HIV-1 mRNA splicing PubMed
rev SF2/ASF and SRp40 interact with a purine-rich motif within the HIV-1 exon 5, and this interaction activates splicing at an upstream 3' splice site and binding of the 5' splice site to U1 snRNP, which are required for splicing of HIV-1 rev and nef mRNAs PubMed
Tat tat Serine/arginine-rich splicing factor 1 (SRSF1) is identified to interact with HIV-1 Tat mutant Nullbasic in HeLa cells by LC MS/MS PubMed
tat HIV-1 Tat competes with SRSF1 for binding to overlapping sequences within TAR and 7SK RNA PubMed
tat SRSF1 (serine/arginine-rich splicing factor 1) inhibits HIV-1 Tat-mediated transactivation activity in HEK293 cells, which is dependent on the HIV-1 LTR promoter and the SRSF1 RNA recognition motifs PubMed
tat HIV-1 Tat mediated splicing is regulated by activating the SF2-dependent GAR enhancer rather than repressing usage of the upstream ESE/ESS2 element PubMed
tat HIV-1 Tat synergizes with type I activators, such as Sp1 and CTF, to enhance transcript elongation and exon skipping, suggesting Tat function leads to the inhibition of splicing factors SF2/ASF and 9G8 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC5228, FLJ30048, FLJ37793, FLJ44342, FLJ53078

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA topoisomerase binding IPI
Inferred from Physical Interaction
more info
PubMed 
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding IPI
Inferred from Physical Interaction
more info
PubMed 
mRNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA export from nucleus TAS
Traceable Author Statement
more info
 
alternative mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
mRNA 3'-end processing TAS
Traceable Author Statement
more info
 
mRNA 5'-splice site recognition IDA
Inferred from Direct Assay
more info
PubMed 
mRNA cis splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA export from nucleus TAS
Traceable Author Statement
more info
 
mRNA processing TAS
Traceable Author Statement
more info
PubMed 
mRNA splice site selection TAS
Traceable Author Statement
more info
PubMed 
mRNA splicing, via spliceosome IC
Inferred by Curator
more info
PubMed 
mRNA splicing, via spliceosome TAS
Traceable Author Statement
more info
 
regulation of alternative mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
catalytic step 2 spliceosome IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
colocalizes_with exon-exon junction complex IDA
Inferred from Direct Assay
more info
PubMed 
nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear speck IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus HDA PubMed 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
serine/arginine-rich splicing factor 1
Names
SR splicing factor 1
alternative-splicing factor 1
pre-mRNA-splicing factor SF2, P33 subunit
splicing factor 2
splicing factor, arginine/serine-rich, 30-KD, A

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001078166.2NP_001071634.1  serine/arginine-rich splicing factor 1 isoform 2

    See identical proteins and their annotated locations for NP_001071634.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) includes an alternate segment in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2, also known as ASF-3) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AB209558, AC015813, CB044653, DA939911
    Consensus CDS
    CCDS58580.1
    UniProtKB/Swiss-Prot
    Q07955
    UniProtKB/TrEMBL
    Q59FA2
    Related
    ENSP00000462215.1, ENST00000582730.6
    Conserved Domains (2) summary
    cd12597
    Location:1790
    RRM1_SRSF1; RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins
    cl17169
    Location:121190
    RRM_SF; RNA recognition motif (RRM) superfamily
  2. NM_006924.5NP_008855.1  serine/arginine-rich splicing factor 1 isoform 1

    See identical proteins and their annotated locations for NP_008855.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1, also known as ASF-1).
    Source sequence(s)
    AC015813, BC010264, CB044653, DA939911
    Consensus CDS
    CCDS11600.1
    UniProtKB/Swiss-Prot
    Q07955
    Related
    ENSP00000258962.4, ENST00000258962.5
    Conserved Domains (2) summary
    cd12597
    Location:1790
    RRM1_SRSF1; RNA recognition motif 1 in serine/arginine-rich splicing factor 1 (SRSF1) and similar proteins
    cd12601
    Location:121193
    RRM2_SRSF1_like; RNA recognition motif 2 in serine/arginine-rich splicing factor SRSF1, SRSF9 and similar proteins

RNA

  1. NR_034041.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 3' exon structure, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC015813, BC033785, CB044653, DA939911

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    58000919..58007346 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_429911.3 RNA Sequence

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