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SF4 Gene

protein-coding   GIFtS: 54

GC19M019247
splicing factor 4
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
DKFZp434E2216 1, 2
F23858 1, 2
RBP 1, 2
Descriptions
RNA-binding protein 2
RNA-binding protein RBP 3
splicing factor 4 2
External Ids
HGNC: 186431
Entrez Gene: 577942
UniProtKB: Q8IWZ83
Ensembl: ENSG000001057057
Search outside databases for aliases for SF4 gene

Previous GC identifers: GC19M019778 GC19M019232 GC19M019248

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for SF4:
SF4 is a member of the SURP family of splicing factors.[supplied by OMIM]

UniProtKB/Swiss-Prot: SF04_HUMAN, Q8IWZ8
Function: Plays a role in premRNA splicing

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the SF4 gene  

Entrez Gene cytogenetic band: 19p13.11   Ensembl cytogenetic band:  19p13.11   HGNC cytogenetic band: 19p13

SF4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M019247:     (about GC identifiers)

Start:
19,248,322 bp from pter
End:
19,292,318 bp from pter
Size:
43,997 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000019.8  NT_011295.10  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: SF04_HUMAN, Q8IWZ8 (See protein sequence)
Recommended Name: Splicing factor 4  
Size: 645 amino acids; 72471 Da
Subunit: Component of the spliceosome
Subcellular location: Nucleus (Probable)
Sequence caution: Sequence=AAC08052.1; Type=Erroneous gene model prediction;
Secondary accessions: O60378 Q6P3X9 Q8TCQ4 Q8WWT4 Q8WWT5 Q9NTG3
Alternative splicing: 2 isoforms:  Q8IWZ8-1   Q8IWZ8-2   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_757386.2  

    ENSEMBL proteins: 
    ENSP00000247001 ENSP00000334032 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (SF4)
    Browse Abnova for Human Recombinant Proteins
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    4 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005622 intracellular IEA--
    GO:0005634 nucleus IEA--
    GO:0005681 spliceosome IEA--
    GO:0005730NOT nucleolus IDA18029348
    About this table

    Antibodies for SF4: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for SF4
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (SF4), each with their AbpromiseSM
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for SF4

    Assays for SF4: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    2 InterPro domains/families:
     IPR000467 G_patch
     IPR000061 Surp


       GeneDecks  SF4 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q8IWZ8

    ProtoNet protein and cluster: Q8IWZ8

    1 Blocks protein family: IPB000467 D111/G-patch domain

    UniProtKB/Swiss-Prot: SF04_HUMAN, Q8IWZ8
    Similarity: Contains 1 G-patch domain
    Similarity: Contains 2 SURP motif repeats

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (SF4)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (SF4)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_172231

                  Applied Biosystems Silencer® siRNAs for SF4

                  Sigma-Aldrich siRNA for SF4  
                         Sigma-Aldrich shRNA for SF4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Browse Clone Ranger at Invitrogen for clones
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_172231
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_172231
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_172231 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_172231

    UniProtKB/Swiss-Prot: SF04_HUMAN, Q8IWZ8
    Function: Plays a role in premRNA splicing

    1 Gene Ontology (GO) molecular function term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003723 RNA binding IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section



    5/108 Interacting proteins for SF4 (ENSP000002470013 Q8IWZ82) via UniProtKB, MINT, and/or STRING (see all 108 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SF3A2Q154282STRING (score=.947) MINT-5206052
    SFRS4ENSP000003629003STRING (score=.953)
    SF3A1ENSP000002157933STRING (score=.921)
    CCAR1ENSP000002658723STRING (score=.899)
    CD2BP2ENSP000003049033STRING (score=.899)
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000398 nuclear mRNA splicing, via spliceosome EXP12226669
    GO:0008380 RNA splicing IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for SF4

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (SF4)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (SF4)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_172231

                  Sigma-Aldrich siRNA for SF4  
                         Sigma-Aldrich shRNA for SF4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_172231  

    REFSEQ mRNAs for SF4 gene: 

    NM_172231.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_172231  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_172231
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_172231
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_172231 

    Additional cDNA sequence: 

    AF521128.1 AK092745.1 AK292085.1 AK294618.1 AK301119.1 AL137286.1 AL713757.1 AY072916.1 
    AY072917.1 BC001043.2 BC002986.1 BC063784.1 BC119728.1 BC119729.1 BC142988.1 CR593392.1 
    CR606492.1 CR607324.1 

    20 DOTS entries:

    DT.92434968  DT.100811580  DT.100811589  DT.102836428  DT.95075334  DT.121492546  DT.121492886  DT.121492969 
    DT.100811584  DT.92001136  DT.95240652  DT.100811588  DT.102836427  DT.121492639  DT.121492800  DT.121492887 
    DT.95198640  DT.100811583  DT.120832029  DT.121492814 

    24/216 AceView cDNA sequences (see all 216 ):

    AK092745 CB155043 CD359220 BU781590 BI768177 BG109463 BQ956578 AY072916 
    CB851075 AL713757 BU786735 BE745790 BU944141 AW411453 AW016900 AI380613 
    BQ016564 BM919744 BF916638 BU177538 BU517220 BF197124 NM_182812 BG675979 

    highest scoring ESTs for SF4:

    AA853264 AF521128 AL544632 AL710749 AL711255 AW674363 AY072916 AY072917 BC063784 BF346065 

    Unigene Cluster for SF4:

    Splicing factor 4
    Hs.515274  [show with all ESTs]
    Unigene Representative Sequence: AY072916


    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for SF4 (see all 6 )

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11a · 11b · 11c ^ 12 ^ 13 ^ 14 ^ 15
    SP1:                                -                             -                                                               
    SP2:                                                                                                                              
    SP3:                                                                                                                              
    SP4:                          -     -     -     -     -     -     -     -     -     -     -     -                                 
    SP5:                                                                                                                              

    About this scheme

    ECgene alternative splicing isoforms for SF4

    2 Ensembl transcripts including schematic representations:
    ENST00000247001  ENST00000334782  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    SF4 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for SF4

    1 / 2 / 3

    5 probe-sets matching SF4 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    31839_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AC004475 0.20 1.00 0.72 1

    209547_s_at2, 3 U133-A 1 1.00 1.00 -- -- BC001043 0.60 1.00 0.82 1

    215004_s_at2, 3 U133-A 1 1.00 1.00 -- -- AC004475 0.20 1.00 0.72 1

    209547_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    215004_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GAGATGGATA

    SOURCE GeneReport for Unigene cluster: Hs.515274

    Expression variation in blood from EXPOLDB for SF4

    UniProtKB/Swiss-Prot: SF04_HUMAN, Q8IWZ8
    Tissue specificity: Detected in adult testis and heart, and in adult and fetal brain, kidney and
    skeletal muscle

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for SF4 gene from 5/12 species (see all 12 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    SF41   -- splicing factor 4 89.71(n)
    93.4(a)
    476661  XM_859900.1  XP_864993.1 
    chimpanzee
    (Pan troglodytes)
    SF41   -- splicing factor 4 99.53(n)
    99.84(a)
    455874  XM_001142356.1  XP_001142356.1 
    rat
    (Rattus norvegicus)
    Sf41   -- splicing factor 4 85.7(n)
    90.02(a)
    290666  NM_001011920.1  NP_001011920.1 
    mouse
    (Mus musculus)
    Sf41, 5 85
    splicing factor 41, 5 86.01(n)1
    90.17(a)1
    706161  NM_027481.21  NP_081757.11 
     AF5211295  AI8458125  (see all 15)
    chicken
    (Gallus gallus)
    SF41   -- splicing factor 4 75.05(n)
    78.32(a)
    428349  XM_425909.2  XP_425909.2 
    About this table        Species with no ortholog for SF4

    ENSEMBL Gene Tree for SF4
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for SF4 gene
    SFRS142  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/194 NCBI SNPs in SF4 are shown (see all 194 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 61)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 19 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs7573461,2
    A,C,F,H19248185(+) AAACAG/ACTTTC 1 -- ng514Minor allele frequency- A:0.01EU EA WA 380
    rs20105061,2
    A,F,H19248356(-) GTGCCG/ATGCCG 1 -- ut31 ese34Minor allele frequency- A:0.16MN EU EA 478
    rs177510611,2
    C,F,H19274092(+) TCTCAC/TGGTTG 1 R/H mis1 ese37Minor allele frequency- T:0.06NA EU EA WA 562
    --
    rs20179641,2
    A,C19248149(-) ggtgcA/Ggtgtc 1 -- ng51 ese30--------
    rs10449801,2
    H19249620(-) TACCAG/CATGCT 1 H/Q mis1 ese35Minor allele frequency- C:0.00MN EU EA WA 588
    rs115550531,2
    C,F,H19251185(+) ATGTCG/ATACAT 1 Y/Y syn17Minor allele frequency- A:0.14NA EU EA WA 562
    rs177510211,2
    C,F,H19252045(+) GTGACG/ACCCAC 1 G/G syn1 ese312Minor allele frequency- A:0.04NA EU EA WA 1074
    rs65110271,2
    A,C,F,H19252851(+) ATGGCC/TCACAT 1 -- int111Minor allele frequency- T:0.14EU EA WA NA 982
    rs20238831,2
    A,C,F,H19266480(+) aaataG/Aataca 1 -- int14Minor allele frequency- A:0.23EU EA WA 412
    rs20745501,2
    A,C,F,H19248743(+) CCAGGA/CGGACA 1 -- int19Minor allele frequency- C:0.34EA EU WA NA 2054
    About this table

    HapMap Linkage Disequilibrium images for SF4 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 607992

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/32 PubMed articles for SF4 gene (see all 32 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 57794 HGNC: 18643 AceView: SF4 Ensembl:ENSG00000105705 euGenes: HUgn57794
    ECgene: SF4 H-InvDB: SF4
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for SF4:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
      Invitrogen Antibodies  Invitrogen Assays
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      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for SF4-related products

     Millipore Custom Antibody & Bulk Services
     Millipore Preclinical / Clinical Development Services
     Millipore Immunoassay Services
     Millipore Target Screening & Profiling Services


     Predesigned and custom siRNAs for SF4 Antibodies for SF4
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for SF4 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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