Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002841
UniProt IDQ07955
Primary gene name(s)SRSF1
Synonym gene name(s)ASF, SF2, SF2P33, SFRS1
Protein nameSerine/arginine-rich splicing factor 1
Protein functionPlays a role in preventing exon skipping, ensuring the accuracy of splicing and regulating alternative splicing. Interacts with other spliceosomal components, via the RS domains, to form a bridge between the 5'- and 3'-splice site binding components, U1 snRNP and U2AF. Can stimulate binding of U1 snRNP to a 5'-splice site-containing pre-mRNA. Binds to purine-rich RNA sequences, either the octamer, 5'-RGAAGAAC-3', r=A or G or the decamers, AGGACAGAGC/AGGACGAAGC. Binds preferentially to the 5'-CGAGGCG-3' motif in vitro. Three copies of the octamer constitute a powerful splicing enhancer in vitro, the ASF/SF2 splicing enhancer, ASE which can specifically activate ASE-dependent splicing. Isoform ASF-2 and isoform ASF-3 act as splicing repressors. May function as export adapter involved in mRNA nuclear export through the TAP/NXF1 pathway. {ECO:0000269|PubMed:8139654}.
Subcellular locationCytoplasm {ECO:0000269|PubMed:12215544, ECO:0000269|PubMed:20308322, ECO:0000269|PubMed:9420331}. Nucleus speckle {ECO:0000269|PubMed:12215544, ECO:0000269|PubMed:20308322, ECO:0000269|PubMed:9420331}. Note=In nuclear speckles. Shuttles between the nucleus and the cytoplasm. {ECO:0000269|PubMed:12215544, ECO:0000269|PubMed:20308322, ECO:0000269|PubMed:9420331}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q07955
Gene Ontology
(Biological Process)
Complete annatation
alternative mRNA splicing, via spliceosome [GO:0000380];
cardiac muscle contraction [GO:0060048];
in utero embryonic development [GO:0001701];
liver regeneration [GO:0097421];
mRNA 3'-end processing [GO:0031124];
mRNA 5'-splice site recognition [GO:0000395];
mRNA export from nucleus [GO:0006406];
mRNA processing [GO:0006397];
mRNA splice site selection [GO:0006376];
mRNA splicing, via spliceosome [GO:0000398];
oligodendrocyte differentiation [GO:0048709];
positive regulation of RNA splicing [GO:0033120];
RNA export from nucleus [GO:0006405];
termination of RNA polymerase II transcription [GO:0006369]
Gene Ontology
(Molecular Function)
Complete annatation
mRNA binding [GO:0003729];
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822];
RNA binding [GO:0003723]
Gene Ontology
(Cellular Component)
Complete annatation
catalytic step 2 spliceosome [GO:0071013];
cytoplasm [GO:0005737];
extracellular exosome [GO:0070062];
nuclear speck [GO:0016607];
nucleoplasm [GO:0005654];
nucleus [GO:0005634]
Protein-protein interaction112324
Phylogenetic treeQ07955
HIV replication factor status Zhou et al., Cell. Host. Microbe., 2008
      unknown
Brass et al., Science, 2008
      unknown
Smith et al., J. Immunol, 2010
      unknown
Interferon-stimulated
gene status
Lu et al., J. Virol., 2011
      Folds changes 8h: unknown; Folds changes 16h: unknown; Tested: unknown;
Schoggins JW and Rice CM, Curr. Opin. Virol., 2011
      Targeted viruses: unknown
      Viral life cycle: unknown
      Mechanism related to antiviral activity: unknown
Anti-viral restriction factor Liu et al., Retrovirology, 2011
      unknown (Triplicates)

Gene Expression Profile       top

            Up-regulated;            Down-regulated

For brief introduction to each study, please go to the help page.

Gene expression during HIV latency

(1). Mohammadi et al., PLoS Pathog., 2014

Differentially expressed transcripts (Pairwise) during latency and subsequent viral reactivation using several agents - Primary CD4+ T-cell based model


DMSO: Dimethyl suloxyde (negative control) - 0.0033% final
SAHA: Vorinostat (Histone deacetylase inhibitor) - 0.5 μM
CD3: TCR Stimulation by IL-2+ antiCD3/anti-CD28 antibodies
IL7: Interleukin-7 based stimulation
DISU: Disulfiram (alcohol dehydrogenase inhibitor) - 0.5 μM
AZA: 5-azacytidine (AZA; DNA methylation inhibitor) - 1 μM
Experimental Condition Log2 Fold Change P value Adjusted P value
AZA vs. CD31.323861232575396.83068145185262e-050.000344206054303987
AZA vs. DISU-0.2555665952328890.3119048344429450.867989006863068
AZA vs. IL70.3190586768068160.09621730842176880.825080779686457
AZA vs. SAHA-0.2605325880607250.2847039683445040.656758776813512
DISU vs. CD3-1.591712747018821.81306983579876e-050.000126075965408659
DISU vs. IL70.565619096868850.02498702443600130.201305617963771
DISU vs. SAHA-0.003944315865325190.989190340681310.999274089415579
DMSO vs. AZA-0.01105875669218680.9471597452356421
DMSO vs. CD3-1.34486706247993.47469868257066e-050.000175247189999756
DMSO vs. DISU0.2430366698998980.3186875211230830.822006745975451
DMSO vs. IL70.3372218834179870.06012772890346270.472096621468594
DMSO vs. SAHA-0.2567779198185620.2752484412995640.623518601957872
HIV vs. Mock in Activation-0.1018156574887890.8699286614613320.999983755607037
HIV vs. Mock in Latency-0.00483239421590660.9765443437748090.999834320637052
IL7 vs. CD3-0.9967326074312240.002078857147888580.00796912863431449
SAHA vs. CD3-1.608968316568188.49911959199812e-065.43871474528287e-05
SAHA vs. IL7-0.5829552031769590.01676518386311120.0896452260425686
(2). Iglesias-Ussel et al., J. Virol., 2013

Up and Downregulated transcripts during Latency (Latently infected CD4+ T cells vs Uninfected)- Primary CD4+Tcell based model
Log2 Fold Change P Value
unknown unknown

Gene expression during HIV infection and replication

(1). Imbeault et al., PloS Pathog., 2012

Transcriptomic profiling of HIV-1 infected CD4+ T cells - Primary CD4+ T cells
Experiment type Log2 Fold Change P Value Adjusted P Value
Infected vs. Mock unknown unknown unknown
Infected vs. Bystander unknown unknown unknown
(2). Lefebvre et al., J. Virol., 2011

Transcriptome analysis of T-cell line (Sup T1)
Log2 Fold Change unknown
(3). Li et al., J. Immunol., 2013

Lymphatic tissue
Acute Fold Change Acute P Value Asymt Fold Change Asypt P Value AIDS Fold Change AIDS P Value
unknown unknown unknown unknown unknown unknown
(4). Chang et al., MBio., 2011

Transcriptome analysis of T-cell line (Sup T1)

Derived from Sherrill-Mix et al., BMC Retrovirol., 2015 cross validation
Up-regulated (True) FALSE
(5). Sherrill-Mix et al., BMC Retrovirol., 2015

Deep RNA-seq analysis of primary human T cell infected with low passage HIV isolate HIV89.6 - Primary CD4+ T cell based
Test Status Log2 Fold Change P Value
OK 0.369839 0.0077978
(6). Rotger et al., PLoS Pathog., 2010

Genome-wide mRNA expression of CD4+ T cells from HIV-infected patient
(Genes differentially expressed (at adjusted p<0.01) according to the empirical Bayes approach)
Log2 Fold Change P Value
unknown unknown

Proteomic/Transcriptomics studies indicating differentially expressed genes mediated by HIV

(1). Greenwood et al., Elife, 2016

Activated (CD3/CD28) Primary human CD4+ T cells infected with pNL4-3-dE-EGFP. The table shows the complete (unfiltered) TMT (tandem mass tag)-based proteomic time course dataset
6 h 24 h 48 h 72 h RTi
0.992 0.932 0.846 0.842 0.939
(2). Navare et al., Virology, 2012

SUP-T1 cell line
FC-4hpi P-value FC-8hpi P-value FC-20hpi P-value Category
unknown unknown unknown unknown unknown unknown unknown
(3). Hyrcza et al., J. Virolo., 2007

Primary human CD4+ and CD8+ T Cells
Affymetrix Prob ID Fold Change In CD8? Category
unknown unknown unknown unknown

Protein Overview       top

Drug-protein Interaction       (annotations from DrugBank)      top

not found

Protein Secondary Structure       (annotations from PDB)      top

PDB Accession Method Resolution Chain Structure Preview
1X4A NMR - A=1-96.
2M7S NMR - A=106-195.
2M8D NMR - B=107-196.
2O3D NMR - A=107-215.
3BEG X-ray 2.9Å B=105-219.
4C0O X-ray 2.5Å C/D=106-230.

HIV-1 Interaction       (annotations from NCBI HIV-1 Interaction Database)      top

HIV Partner Interaction Type PubMed
Gag-Pol complexes with 23125841
Rev inhibits 8189522
8626563
9023367
20668893
Rev inhibited by 11967326
Rev requires 15163745
19004959
Nef complexes with 23125841
Tat interacts with 25496916
Pr55(Gag) enhanced by 20668893
Rev interacts with 8189522
8626563
Envelope surface glycoprotein gp120 complexes with 23125841
Tat competes with 25416801
Tat inhibits 12221105
19716452
Tat inhibited by 25416801
Pr55(Gag) complexes with 23125841
Tat regulated by 19966273

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03040 Spliceosome - Homo sapiens (human)
hsa04657 IL-17 signaling pathway - Homo sapiens (human)
hsa05168 Herpes simplex infection - Homo sapiens (human)
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