Format

Send to:

Choose Destination

SRSF5 serine and arginine rich splicing factor 5 [ Homo sapiens (human) ]

Gene ID: 6430, updated on 12-Oct-2019

Summary

Official Symbol
SRSF5provided by HGNC
Official Full Name
serine and arginine rich splicing factor 5provided by HGNC
Primary source
HGNC:HGNC:10787
See related
Ensembl:ENSG00000100650 MIM:600914
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
HRS; SFRS5; SRP40
Summary
The protein encoded by this gene is a member of the serine/arginine (SR)-rich family of pre-mRNA splicing factors, which constitute part of the spliceosome. Each of these factors contains an RNA recognition motif (RRM) for binding RNA and an RS domain for binding other proteins. The RS domain is rich in serine and arginine residues and facilitates interaction between different SR splicing factors. In addition to being critical for mRNA splicing, the SR proteins have also been shown to be involved in mRNA export from the nucleus and in translation. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Feb 2016]
Expression
Ubiquitous expression in bone marrow (RPKM 175.0), skin (RPKM 153.9) and 25 other tissues See more
Orthologs

Genomic context

See SRSF5 in Genome Data Viewer
Location:
14q24.1
Exon count:
9
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 14 NC_000014.9 (69767112..69772005)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (70233812..70238722)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene coiled-coil domain containing 177 Neighboring gene sushi domain containing 6 Neighboring gene Sharpr-MPRA regulatory region 8327 Neighboring gene uncharacterized LOC100289511 Neighboring gene solute carrier family 10 member 1 Neighboring gene Sharpr-MPRA regulatory region 10266 Neighboring gene uncharacterized LOC100506358

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 gp160, precursor env The bidirectional SF2/ASF- and SRp40-dependent splicing enhancer regulates HIV-1 rev, env, vpu, and nef gene expression PubMed
Nef nef The bidirectional SF2/ASF- and SRp40-dependent splicing enhancer regulates HIV-1 rev, env, vpu, and nef gene expression PubMed
Pr55(Gag) gag Human CRM1 and SRp40 increase the amount of unspliced HIV-1 RNA and have a more-than-additive effect on HIV-1 titers in mouse cells PubMed
gag SR proteins, particularly SRp40 and SRp55, increase HIV-1 Gag translation from unspliced viral RNA. The second RNA recognition motif and the arginine-serine (RS) domain are determinants of SR protein activity PubMed
Rev 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
Vpu vpu The bidirectional SF2/ASF- and SRp40-dependent splicing enhancer regulates HIV-1 rev, env, vpu, and nef gene expression PubMed
capsid gag Human CRM1 and SRp40 have a more-than-additive effect on HIV-1 CA production in mouse cells 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...
  • 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...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
RNA binding HDA PubMed 
RNA binding IBA
Inferred from Biological aspect of Ancestor
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
 
cellular response to insulin stimulus 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 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 TAS
Traceable Author Statement
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 
regulation of cell cycle IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear speck ISS
Inferred from Sequence or Structural Similarity
more info
 
nucleolus IDA
Inferred from Direct Assay
more info
 
nucleoplasm IDA
Inferred from Direct Assay
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
serine/arginine-rich splicing factor 5
Names
SR splicing factor 5
delayed-early protein HRS
pre-mRNA-splicing factor SRP40
splicing factor, arginine/serine-rich 5

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_001039465.2NP_001034554.1  serine/arginine-rich splicing factor 5

    See identical proteins and their annotated locations for NP_001034554.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AA640719, BC018823, BU928782
    Consensus CDS
    CCDS32109.1
    UniProtKB/Swiss-Prot
    Q13243
    UniProtKB/TrEMBL
    A0A024R6D8
    Related
    ENSP00000377892.2, ENST00000394366.6
    Conserved Domains (2) summary
    cd12337
    Location:571
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:108178
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
  2. NM_001320214.2NP_001307143.1  serine/arginine-rich splicing factor 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AL157789, BC040209, DC307911
    Consensus CDS
    CCDS32109.1
    UniProtKB/Swiss-Prot
    Q13243
    UniProtKB/TrEMBL
    A0A024R6D8
    Related
    ENSP00000451088.1, ENST00000557154.6
    Conserved Domains (2) summary
    cd12337
    Location:571
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:108178
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
  3. NM_006925.5NP_008856.2  serine/arginine-rich splicing factor 5

    See identical proteins and their annotated locations for NP_008856.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 3 encode the same protein.
    Source sequence(s)
    AL157789, BX407495, DR761538
    Consensus CDS
    CCDS32109.1
    UniProtKB/Swiss-Prot
    Q13243
    UniProtKB/TrEMBL
    A0A024R6D8
    Related
    ENSP00000451391.1, ENST00000553635.5
    Conserved Domains (2) summary
    cd12337
    Location:571
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:108178
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20190905

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000014.9 Reference GRCh38.p13 Primary Assembly

    Range
    69767112..69772005
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005267999.2XP_005268056.1  serine/arginine-rich splicing factor 5 isoform X1

    See identical proteins and their annotated locations for XP_005268056.1

    Conserved Domains (2) summary
    cd12337
    Location:571
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:108178
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
  2. XM_011537077.3XP_011535379.1  serine/arginine-rich splicing factor 5 isoform X2

    See identical proteins and their annotated locations for XP_011535379.1

    Conserved Domains (2) summary
    cd12337
    Location:566
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:75145
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
  3. XM_005268000.2XP_005268057.1  serine/arginine-rich splicing factor 5 isoform X1

    See identical proteins and their annotated locations for XP_005268057.1

    Conserved Domains (2) summary
    cd12337
    Location:571
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:108178
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
  4. XM_017021593.2XP_016877082.1  serine/arginine-rich splicing factor 5 isoform X1

    Conserved Domains (2) summary
    cd12337
    Location:571
    RRM1_SRSF4_like; RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
    cd12600
    Location:108178
    RRM2_SRSF4_like; RNA recognition motif 2 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins
  5. XM_017021594.2XP_016877083.1  serine/arginine-rich splicing factor 5 isoform X3

    UniProtKB/TrEMBL
    Q86U32
    Conserved Domains (1) summary
    cl17169
    Location:151
    RRM_SF; RNA recognition motif (RRM) superfamily

RNA

  1. XR_943505.2 RNA Sequence

    Related
    ENST00000555547.5
  2. XR_001750510.2 RNA Sequence

  3. XR_001750508.2 RNA Sequence

  4. XR_001750513.2 RNA Sequence

  5. XR_943506.2 RNA Sequence

  6. XR_001750514.2 RNA Sequence

  7. XR_001750509.1 RNA Sequence

  8. XR_001750512.1 RNA Sequence

Support Center