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

    Gene ID: 6426, updated on 15-Apr-2019

    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:
    4
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 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

    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 FunctionsWhat'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 BioSystems

    • Cleavage of Growing Transcript in the Termination Region, organism-specific biosystem (from REACTOME)
      Cleavage of Growing Transcript in the Termination Region, organism-specific biosystemThis section includes the cleavage of both polyadenylated and non-polyadenylated transcripts. In the former case polyadenylation has to precede transcript cleavage, while in the latter case there is ...
    • Gene Expression, organism-specific biosystem (from REACTOME)
      Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
    • Herpes simplex infection, organism-specific biosystem (from KEGG)
      Herpes simplex infection, organism-specific biosystemHerpes simplex virus (HSV) infections are very common worldwide, with the prevalence of HSV-1 reaching up to 80%-90%. Primary infection with HSV takes place in the mucosa, followed by the establishme...
    • Herpes simplex infection, conserved biosystem (from KEGG)
      Herpes simplex infection, conserved biosystemHerpes simplex virus (HSV) infections are very common worldwide, with the prevalence of HSV-1 reaching up to 80%-90%. Primary infection with HSV takes place in the mucosa, followed by the establishme...
    • IL-17 signaling pathway, organism-specific biosystem (from KEGG)
      IL-17 signaling pathway, organism-specific biosystemThe interleukin 17 (IL-17) family, a subset of cytokines consisting of IL-17A-F, plays crucial roles in both acute and chronic inflammatory responses. IL-17A, the hallmark cytokine of the newly defi...
    • IL-17 signaling pathway, conserved biosystem (from KEGG)
      IL-17 signaling pathway, conserved biosystemThe interleukin 17 (IL-17) family, a subset of cytokines consisting of IL-17A-F, plays crucial roles in both acute and chronic inflammatory responses. IL-17A, the hallmark cytokine of the newly defi...
    • Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystem (from REACTOME)
      Processing of Capped Intron-Containing Pre-mRNA, organism-specific biosystemCo-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per ge...
    • RNA Polymerase II Transcription, organism-specific biosystem (from REACTOME)
      RNA Polymerase II Transcription, organism-specific biosystem
      RNA Polymerase II Transcription
    • RNA Polymerase II Transcription Termination, organism-specific biosystem (from REACTOME)
      RNA Polymerase II Transcription Termination, organism-specific biosystemThe detailed annotation of this section will be completed in the next release.
    • Spliceosome, organism-specific biosystem (from KEGG)
      Spliceosome, organism-specific biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
    • Spliceosome, conserved biosystem (from KEGG)
      Spliceosome, conserved biosystemAfter transcription, eukaryotic mRNA precursors contain protein-coding exons and noncoding introns. In the following splicing, introns are excised and exons are joined by a macromolecular complex, th...
    • Transport of Mature Transcript to Cytoplasm, organism-specific biosystem (from REACTOME)
      Transport of Mature Transcript to Cytoplasm, organism-specific biosystemTransport of mRNA through the Nuclear Pore Complex (NPC) is a dynamic process involving distinct machinery and receptor subsets. The separation of the two compartments and the regulation of this tran...
    • Transport of Mature mRNA derived from an Intron-Containing Transcript, organism-specific biosystem (from REACTOME)
      Transport of Mature mRNA derived from an Intron-Containing Transcript, organism-specific biosystemTransport of mRNA from the nucleus to the cytoplasm, where it is translated into protein, is highly selective and closely coupled to correct RNA processing. This coupling is achieved by the nuclear p...
    • mRNA 3'-end processing, organism-specific biosystem (from REACTOME)
      mRNA 3'-end processing, organism-specific biosystemThe 3' ends of eukaryotic mRNAs are generated by posttranscriptional processing of an extended primary transcript. For almost all RNAs, 3'-end processing consists of two steps: (i) the mRNA is first ...
    • mRNA Processing, organism-specific biosystem (from WikiPathways)
      mRNA Processing, organism-specific biosystemThis process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA). The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' po...
    • mRNA Splicing, organism-specific biosystem (from REACTOME)
      mRNA Splicing, organism-specific biosystemThe process in which excision of introns from the primary transcript of messenger RNA (mRNA) is followed by ligation of the two exon termini exposed by removal of each intron, is called mRNA splicing...
    • mRNA Splicing - Major Pathway, organism-specific biosystem (from REACTOME)
      mRNA Splicing - Major Pathway, organism-specific biosystemThe splicing of pre-mRNA occurs within a large, very dynamic complex, designated the 'spliceosome'. The 50-60S spliceosomes are estimated to be 40-60 nm in diameter, and have molecular weights in the...
    • mRNA Splicing - Minor Pathway, organism-specific biosystem (from REACTOME)
      mRNA Splicing - Minor Pathway, organism-specific biosystemThe splicing of a subset of pre-mRNA introns occurs by a second pathway, designated the AT-AC or U12-dependent splicing pathway. AT-AC introns have highly conserved, non-canonical splice sites that ...

    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 
    RS domain binding IEA
    Inferred from Electronic Annotation
    more info
     
    mRNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein kinase B binding IEA
    Inferred from Electronic Annotation
    more info
     
    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 
    cardiac muscle contraction IEA
    Inferred from Electronic Annotation
    more info
     
    in utero embryonic development IEA
    Inferred from Electronic Annotation
    more info
     
    liver regeneration IEA
    Inferred from Electronic Annotation
    more info
     
    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
     
    oligodendrocyte differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of RNA splicing IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    more info
     
    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_001078166.1NP_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

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

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

    RNA

    1. XR_429911.3 RNA Sequence

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