Detailed entry information

Protein Information (annotations from UniProt)

Database IDHIV0002844
UniProt IDQ13247
Primary gene name(s)SRSF6
Synonym gene name(s)SFRS6, SRP55
Protein nameSerine/arginine-rich splicing factor 6
Protein functionPlays a role in constitutive splicing and modulates the selection of alternative splice sites. Plays a role in the alternative splicing of MAPT/Tau exon 10. Binds to alternative exons of TNC pre-mRNA and promotes the expression of alternatively spliced TNC. Plays a role in wound healing and in the regulation of keratinocyte differentiation and proliferation via its role in alternative splicing. {ECO:0000269|PubMed:12549914, ECO:0000269|PubMed:15009664, ECO:0000269|PubMed:22767602, ECO:0000269|PubMed:24440982}.
Subcellular locationNucleus {ECO:0000269|PubMed:12549914, ECO:0000269|PubMed:22767602}. Nucleus speckle {ECO:0000269|PubMed:22767602}.
ECO codeClick here for more information.
Amino acid sequence
FASTA format: Q13247
Gene Ontology
(Biological Process)
Complete annatation
alternative mRNA splicing, via spliceosome [GO:0000380];
mRNA 3'-end processing [GO:0031124];
mRNA export from nucleus [GO:0006406];
mRNA splice site selection [GO:0006376];
mRNA splicing, via spliceosome [GO:0000398];
negative regulation of cell death [GO:0060548];
negative regulation of keratinocyte differentiation [GO:0045617];
negative regulation of mRNA splicing, via spliceosome [GO:0048025];
negative regulation of type B pancreatic cell apoptotic process [GO:2000675];
positive regulation of epithelial cell proliferation involved in lung morphogenesis [GO:0060501];
regulation of alternative mRNA splicing, via spliceosome [GO:0000381];
regulation of keratinocyte proliferation [GO:0010837];
regulation of wound healing [GO:0061041];
response to insulin [GO:0032868];
RNA export from nucleus [GO:0006405];
termination of RNA polymerase II transcription [GO:0006369]
Gene Ontology
(Molecular Function)
Complete annatation
nucleotide binding [GO:0000166];
poly(A RNA binding [GO:0044822];
pre-mRNA binding [GO:0036002];
RNA binding [GO:0003723]
Gene Ontology
(Cellular Component)
Complete annatation
nuclear speck [GO:0016607];
nucleoplasm [GO:0005654]
Protein-protein interaction112329
Phylogenetic treeQ13247
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. CD30.589527576583430.07227945227915820.134826225835578
AZA vs. DISU0.0768380136067530.760832294738380.976021571236163
AZA vs. IL70.05034147508043910.7927842817060450.999311006273513
AZA vs. SAHA-0.9058169756797550.0002692357474255450.00814951738291699
DISU vs. CD3-0.5259482423871750.1477008943478280.252947430288476
DISU vs. IL7-0.03536159032638410.8881649225581070.979940654995064
DISU vs. SAHA-0.9814399297685510.0009258093085763310.0197353212016321
DMSO vs. AZA-0.0176990804241590.9155188206141631
DMSO vs. CD3-0.6184044476587150.05360274432940160.102244282517401
DMSO vs. DISU-0.09624314819987450.6926821820222790.957954410639349
DMSO vs. IL70.07522804039094240.67465100865010.932817924030342
DMSO vs. SAHA-0.8950849642036640.0001955225202234790.00572178621803505
HIV vs. Mock in Activation0.01607264976197890.9793560243207780.999983755607037
HIV vs. Mock in Latency0.01519645012982580.9263176385243930.999834320637052
IL7 vs. CD3-0.5312039087934650.09853021197556130.187565784934028
SAHA vs. CD3-1.519846808427253.37363458448037e-050.000184005331842632
SAHA vs. IL7-0.9601285724972290.0001122321393425270.00214421707027789
(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
1.1 0.532029172 -1.4 0.544088281 -2.6 0.037700487
(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 0.0596903 0.730504
(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
1.113 0.998 0.984 1.03 1.034
(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

not found

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

HIV Partner Interaction Type PubMed
Pr55(Gag) upregulates 20427542
21345357
capsid regulated by 21345357
Nef inhibited by 25889056
Rev inhibited by 25889056
HIV-1 virus replication enhanced by expression of human gene 18854154
Tat activated by 25889056

Metabolic/Signalling Pathway       (annotations from KEGG database)      top

Pathway Accession Number Description
hsa03040 Spliceosome - Homo sapiens (human)
hsa05168 Herpes simplex infection - Homo sapiens (human)
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