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SUPT5H Gene

protein-coding   GIFtS: 60
GCID: GC19P039936

Suppressor Of Ty 5 Homolog (S. Cerevisiae)

(Previous name: suppressor of Ty (S.cerevisiae) 5 homolog)
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Aliases
for SUPT5H gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Suppressor Of Ty 5 Homolog (S. Cerevisiae)1 2     hSPT52 3
SPT52 3 5     Tat-Cotransactivator 1 Protein2 3
SPT5H2 3     Suppressor Of Ty (S.Cerevisiae) 5 Homolog1
DRB Sensitivity-Inducing Factor 160 KDa Subunit2 3     Tat-CT12
DRB Sensitivity-Inducing Factor Large Subunit2 3     Transcription Elongation Factor SPT52
DSIF Large Subunit2 3     Tat-CT1 Protein3
DSIF P1602 3     

External Ids:    HGNC: 114691   Entrez Gene: 68292   Ensembl: ENSG000001962357   OMIM: 6021025   UniProtKB: O002673   

Export aliases for SUPT5H gene to outside databases

Previous GC identifers: GC19P040577 GC19P040327 GC19P044612 GC19P044628 GC19P036382


Summaries
for SUPT5H gene

(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SUPT5H Gene:
SUPT5H (suppressor of Ty 5 homolog (S. cerevisiae)) is a protein-coding gene. Diseases associated with SUPT5H include wolf-hirschhorn syndrome, and brain cancer. GO annotations related to this gene include enzyme binding and protein heterodimerization activity.

UniProtKB/Swiss-Prot: SPT5H_HUMAN, O00267
Function: Component of the DRB sensitivity-inducing factor complex (DSIF complex), which regulates mRNA processing
and transcription elongation by RNA polymerase II. DSIF positively regulates mRNA capping by stimulating the mRNA
guanylyltransferase activity of RNGTT/CAP1A. DSIF also acts cooperatively with the negative elongation factor
complex (NELF complex) to enhance transcriptional pausing at sites proximal to the promoter. Transcriptional
pausing may facilitate the assembly of an elongation competent RNA polymerase II complex. DSIF and NELF promote
pausing by inhibition of the transcription elongation factor TFIIS/S-II. TFIIS/S-II binds to RNA polymerase II at
transcription pause sites and stimulates the weak intrinsic nuclease activity of the enzyme. Cleavage of blocked
transcripts by RNA polymerase II promotes the resumption of transcription from the new 3' terminus and may allow
repeated attempts at transcription through natural pause sites. DSIF can also positively regulate transcriptional
elongation and is required for the efficient activation of transcriptional elongation by the HIV-1 nuclear
transcriptional activator, Tat. DSIF acts to suppress transcriptional pausing in transcripts derived from the
HIV-1 LTR and blocks premature release of HIV-1 transcripts at terminator sequences

Gene Wiki entry for SUPT5H Gene


Genomic Views
for SUPT5H gene

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000019.10  NT_011109.17  NC_018930.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SUPT5H gene promoter:
         HSF2   ZIC2/Zic2   Pax-4a   YY1   GATA-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: SUPT5H promoter sequence
   Search Chromatin IP Primers for SUPT5H

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SUPT5H


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 19q13   Ensembl cytogenetic band:  19q13.2   HGNC cytogenetic band: 19q13

SUPT5H Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SUPT5H gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P039936:  view genomic region     (about GC identifiers)

Start:
 39,926,796 bp from pter      End:
 39,967,310 bp from pter
Size:
 40,515 bases      Orientation:
 plus strand

Proteins
for SUPT5H gene

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: SPT5H_HUMAN, O00267 (See protein sequence)
Recommended Name: Transcription elongation factor SPT5  
Size: 1087 amino acids; 121000 Da
Subunit: Interacts with SUPT4H1 to form DSIF. DSIF interacts with the positive transcription elongation factor b
complex (P-TEFb complex), which is composed of CDK9 and cyclin-T (CCNT1 or CCNT2). DSIF interacts with RNA
polymerase II, and this interaction is reduced by phosphorylation of the C-terminal domain (CTD) of POLR2A by
P-TEFb. DSIF also interacts with the NELF complex, which is composed of WHSC2/NELFA, COBRA1/NELFB, TH1L/NELFD and
RDBP/NELFE, and this interaction occurs following prior binding of DSIF to RNA polymerase II. DSIF also interacts
with PRMT1/HRMT1L2, HTATSF1/TATSF1, RNGTT/CAP1A, PRMT5/SKB1, SUPT6H, and can interact with PIN1. Component of a
complex which is at least composed of HTATSF1/Tat-SF1, the P-TEFb complex components CDK9 and CCNT1, RNA
polymerase II, SUPT5H, and NCL/nucleolin
Sequence caution: Sequence=BAD92494.1; Type=Erroneous initiation;
5 PDB 3D structures from and Proteopedia for SUPT5H:
2DO3 (3D)        2E6Z (3D)        2E70 (3D)        3H7H (3D)        4L1U (3D)    
Secondary accessions: O43279 Q59G52 Q99639
Alternative splicing: 2 isoforms:  O00267-1   O00267-2   

Explore the universe of human proteins at neXtProt for SUPT5H: NX_O00267

Explore proteomics data for SUPT5H at MOPED

Post-translational modifications: 

  • Methylated by PRMT1/HRMT1L2 and PRMT5/SKB1. Methylation negatively regulates interaction with P-TEFb and RNA
    polymerase II1
  • Phosphorylated by CDK7 and CDK9. Phosphorylation by P-TEFb alleviates transcriptional pausing and can stimulate
    transcriptional elongation from the HIV-1 LTR. P-TEFb dependent phosphorylation is stimulated by the HIV-1 Tat
    protein. Phosphorylation may also stimulate interaction with PIN1. Bulk phosphorylation occurs predominantly in
    mitosis1
  • Ubiquitination2 at Lys147, Lys199, Lys213, Lys306, Lys323, Lys650, Lys718
  • Modification sites at PhosphoSitePlus

    • See SUPT5H Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (4 alternative transcripts): 
    NP_001104490.1  NP_001124296.1  NP_001124297.1  NP_003160.2  

    ENSEMBL proteins: 
     ENSP00000471561   ENSP00000470252   ENSP00000472675   ENSP00000470595   ENSP00000352117  
     ENSP00000469090   ENSP00000469915   ENSP00000404029   ENSP00000384505  
    Reactome Protein details: O00267

    SUPT5H Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
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    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Proteins for SUPT5H
    OriGene Protein Over-expression Lysate for SUPT5H
    OriGene Custom MassSpec
    OriGene Custom Protein Services for SUPT5H
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    Novus Biologicals SUPT5H Protein
    Browse Sino Biological Recombinant Proteins
    Browse Sino Biological Cell Lysates
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SUPT5H

    SUPT5H Antibody Products:

    EMD Millipore Mono- and Polyclonal Antibodies for the study of SUPT5H
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    Cell Signaling Technology (CST) Antibodies for SUPT5H  (SPT5)
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    Novus Biologicals SUPT5H Antibodies
    Abcam antibodies for SUPT5H (Q99639, O00267)
    Cloud-Clone Corp. Antibodies for SUPT5H
    Search ThermoFisher Antibodies for SUPT5H
    LSBio Antibodies in human, mouse, rat for SUPT5H

    SUPT5H Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    Browse R&D Systems for biochemical assays
    GenScript Custom Assay Services for SUPT5H
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for SUPT5H
    Cloud-Clone Corp. CLIAs for SUPT5H

    Domains /
    Families
    for SUPT5H gene

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

    TryGeneCards Plus    		 Selected InterPro protein domains (see all 7):
     IPR017071 TF_Spt5
     IPR006645 Transcrpt_antiterm_NusG_N_dom
     IPR024945 Spt5_C_dom
     IPR005100 TF_Spt5_NGN-domain
     IPR008991 Translation_prot_SH3-like

    Graphical View of Domain Structure for InterPro Entry O00267

    ProtoNet protein and cluster: O00267

    1 Blocks protein domain: IPB006646 KOW (Kyprides

    UniProtKB/Swiss-Prot: SPT5H_HUMAN, O00267
    Similarity: Belongs to the SPT5 family
    Similarity: Contains 5 KOW domains


    SUPT5H for domains           About GeneDecksing


    Function
    for SUPT5H gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
    About This Section

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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SPT5H_HUMAN, O00267
    Function: Component of the DRB sensitivity-inducing factor complex (DSIF complex), which regulates mRNA processing
    and transcription elongation by RNA polymerase II. DSIF positively regulates mRNA capping by stimulating the mRNA
    guanylyltransferase activity of RNGTT/CAP1A. DSIF also acts cooperatively with the negative elongation factor
    complex (NELF complex) to enhance transcriptional pausing at sites proximal to the promoter. Transcriptional
    pausing may facilitate the assembly of an elongation competent RNA polymerase II complex. DSIF and NELF promote
    pausing by inhibition of the transcription elongation factor TFIIS/S-II. TFIIS/S-II binds to RNA polymerase II at
    transcription pause sites and stimulates the weak intrinsic nuclease activity of the enzyme. Cleavage of blocked
    transcripts by RNA polymerase II promotes the resumption of transcription from the new 3' terminus and may allow
    repeated attempts at transcription through natural pause sites. DSIF can also positively regulate transcriptional
    elongation and is required for the efficient activation of transcriptional elongation by the HIV-1 nuclear
    transcriptional activator, Tat. DSIF acts to suppress transcriptional pausing in transcripts derived from the
    HIV-1 LTR and blocks premature release of HIV-1 transcripts at terminator sequences

         Genatlas biochemistry entry for SUPT5H:
    putative chromatin structure regulator yeast Spt5 homolog,(histones group)

         Gene Ontology (GO): 5 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003682chromatin binding IEA--
    GO:0005515protein binding IPI10075709
    GO:0019899enzyme binding IPI10075709
    GO:0044822poly(A) RNA binding IDA--
    GO:0046982protein heterodimerization activity IPI9450929
         
    SUPT5H for ontologies           About GeneDecksing


    Phenotypes:
         4 GenomeRNAi human phenotypes for SUPT5H:
     Decreased TP53 protein express  Decreased viability  G0/1 arrest  Increased G1 DNA content 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SUPT5H
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for SUPT5H

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SUPT5H
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SUPT5H

    miRNA
    Products:            		miRTarBase miRNAs that target SUPT5H:
    hsa-mir-935 (MIRT036670), hsa-mir-92b-3p (MIRT040704), hsa-mir-92a-3p (MIRT049464), hsa-mir-1229-3p (MIRT036363), hsa-mir-155-5p (MIRT020754), hsa-mir-93-3p (MIRT038889), hsa-mir-34a-5p (MIRT025307), hsa-mir-26b-5p (MIRT029450), hsa-mir-324-3p (MIRT042864), hsa-mir-484 (MIRT042043), hsa-mir-16-5p (MIRT051148), hsa-mir-149-5p (MIRT045555)

    Block miRNA regulation of human, mouse, rat SUPT5H using miScript Target Protectors
    2 qRT-PCR Assays for microRNAs that regulate SUPT5H:
    hsa-miR-1321 hsa-miR-488
    SwitchGear 3'UTR luciferase reporter plasmid: SUPT5H 3' UTR sequence
    Inhib. RNA
    Products:            		OriGene RNAi products in human, mouse, rat for SUPT5H
    Predesigned siRNA for gene silencing in human, mouse, rat SUPT5H

    Gene Editing
    Products:    		DNA2.0 Custom Protein Engineering Service for SUPT5H

    Clone
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    OriGene ORF clones in mouse, rat for SUPT5H
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    GenScript: all cDNA clones in your preferred vector (see all 4): SUPT5H (NM_003169)
    Browse Sino Biological Human cDNA Clones
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SUPT5H
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SUPT5H

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for SUPT5H 
    In Situ Assay
    Products:       
         		Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SUPT5H


    Localization
    for SUPT5H gene

    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
    About This Section

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    Subcellular locations from UniProtKB/Swiss-Prot
    SPT5H_HUMAN, O00267: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2

    Gene Ontology (GO): 4 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005654nucleoplasm TAS--
    GO:0005730NOT nucleolus IDA--
    GO:0032044DSIF complex IDA9450929

    SUPT5H for ontologies           About GeneDecksing


    Pathways & Interactions
    for SUPT5H gene

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
    About This Section

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    SuperPaths for SUPT5H About   (see all 6)                                                                                              See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1Formation of RNA Pol II elongation complex
    		mRNA Capping0.93
    		Formation of RNA Pol II elongation complex0.75
    		RNA Pol II CTD phosphorylation and interaction with CE0.93
    		RNA Polymerase II Pre-transcription Events0.73
    		RNA Pol II CTD phosphorylation and interaction with CE0.93
    		Pausing and recovery of HIV elongation0.73
    		Formation of the Early Elongation Complex0.77
    		HIV elongation arrest and recovery0.73
    2HIV Life Cycle
    		HIV Life Cycle0.91
    		HIV Infection0.62
    		Late Phase of HIV Life Cycle0.91
    3mRNA Splicing - Major Pathway
    		mRNA processing0.44
    4Gene Expression
    		Gene Expression0.40
    5Disease
    		Disease

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for SUPT5H
        Chromatin Regulation / Acetylation

    1 BioSystems Pathway for SUPT5H
        mRNA processing

    Selected Reactome Pathways for SUPT5H (see all 16)
        Pausing and recovery of Tat-mediated HIV elongation
    Tat-mediated HIV elongation arrest and recovery
    Formation of RNA Pol II elongation complex
    Tat-mediated elongation of the HIV-1 transcript
    RNA Pol II CTD phosphorylation and interaction with CE



    SUPT5H for pathways           About GeneDecksing

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SUPT5H
    Interactions:

        GeneGlobe Interaction Network for SUPT5H

    Selected Interacting proteins for SUPT5H (O002671, 2, 3) via UniProtKB, MINT, STRING, and/or I2D (see all 203)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=2 
    HIST1H4BP628053I2D: score=2 
    HIST1H4CP628053I2D: score=2 
    HIST1H4DP628053I2D: score=2 
    HIST1H4EP628053I2D: score=2 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 19):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000122negative regulation of transcription from RNA polymerase II promoter IDA10075709
    GO:0006338chromatin remodeling NAS10075709
    GO:0006354DNA-templated transcription, elongation IDA10075709
    GO:0006355regulation of transcription, DNA-templated ----
    GO:0006357regulation of transcription from RNA polymerase II promoter ----

    SUPT5H for ontologies           About GeneDecksing



    Drugs & Compounds
    for SUPT5H gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
    About This Section

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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SUPT5H (SPT5H)

    1 Novoseek inferred chemical compound relationship for SUPT5H gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    5,6-dichloro-1-beta-d-ribofuranosylbenzimidazole 87 4 19860741 (1), 9450929 (1), 10075709 (1)



    SUPT5H for compounds           About GeneDecksing



    Transcripts
    for SUPT5H gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
    About This Section

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    REFSEQ mRNAs for SUPT5H gene (4 alternative transcripts): 
    NM_001111020.2  NM_001130824.1  NM_001130825.1  NM_003169.3  

    Unigene Cluster for SUPT5H:

    Suppressor of Ty 5 homolog (S. cerevisiae)
    Hs.631604  [show with all ESTs]
    Unigene Representative Sequence: NM_003169
    Selected Ensembl transcripts including schematic representations, and UCSC links where relevant (see all 19):
    ENST00000594990 ENST00000599117 ENST00000601515 ENST00000595368 ENST00000594729
    ENST00000601978 ENST00000359191(uc002olr.4) ENST00000598725 ENST00000598459
    ENST00000593727 ENST00000598786 ENST00000599907 ENST00000598520 ENST00000599335
    ENST00000598117 ENST00000596208 ENST00000600818 ENST00000432763(uc002olo.4 uc002olp.4 uc002oln.4)

    Congresses - knowledge worth sharing:
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    2 qRT-PCR Assays for microRNAs that regulate SUPT5H:
    hsa-miR-1321 hsa-miR-488
    SwitchGear 3'UTR luciferase reporter plasmid: SUPT5H 3' UTR sequence
    Inhib. RNA
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SUPT5H
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for SUPT5H
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat SUPT5H
      QuantiTect SYBR Green Assays in human, mouse, rat SUPT5H
      QuantiFast Probe-based Assays in human, mouse, rat SUPT5H

    Additional mRNA sequence: 

    AB000516.1 AB209257.1 AF040253.1 AF052165.1 AK091476.1 AK295137.1 AK296117.1 AK302954.1 
    AK303480.1 BC024203.2 BC113039.1 U56402.1 Y12790.1 

    Selected DOTS entries (see all 32):

    DT.91760765  DT.452135  DT.100048831  DT.100809109  DT.100820836  DT.121440403  DT.100820829  DT.100820832 
    DT.86993018  DT.121440406  DT.95320049  DT.121440285  DT.121440427  DT.97864300  DT.99993811  DT.100042588 
    DT.100820835  DT.121440442  DT.95259689  DT.40115069  DT.95211634  DT.100732126  DT.121440425  DT.121440428 

    Selected AceView cDNA sequences (see all 471):

    CB528841 BX413900 AA340185 CF124958 AA514292 BQ778142 AA743559 BU170462 
    BE832946 BP342034 D20872 AI874276 CB129665 BI793316 AW960806 BQ219906 
    BI089773 BP372327 CB070250 AL704829 CR623112 AA325168 BG396298 BQ716457 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for SUPT5H (see all 8)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14a · 14b · 14c ^ 15 ^ 16 ^ 17a · 17b ^
    SP1:                                                        -                                                           -                                       
    SP2:                                                                                                                                                            
    SP3:                                                                                                  -     -     -     -     -     -     -     -     -     -   
    SP4:              -                                         -                                                                                                   
    SP5:                                                                                                                                                            

    ExUns: 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25a · 25b ^ 26 ^ 27a · 27b ^ 28a · 28b ^ 29a · 29b ^ 30a · 30b
    SP1:                                                                                -     -                     
    SP2:                                                                                                            
    SP3:  -     -     -     -     -     -     -     -                                                               
    SP4:                                                                                                            
    SP5:                                                                                                            


    ECgene alternative splicing isoforms for SUPT5H

    Expression
    for SUPT5H gene

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

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    SUPT5H expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGCTCTGTGT
    SUPT5H Expression
    About this image

    SUPT5H Protein expression data from MOPED1, PaxDb2 and MaxQB3:     About this image

    SUPT5H Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.631604

    UniProtKB/Swiss-Prot: SPT5H_HUMAN, O00267
    Tissue specificity: Ubiquitously expressed

        Custom PCR Arrays for SUPT5H
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    Orthologs
    for SUPT5H gene

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for SUPT5H gene from Selected species (see all 24)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    mouse
    (Mus musculus)    		 Mammalia Supt51 , 5 suppressor of Ty 5 homolog (S. cerevisiae)5
    suppressor of Ty 51    		 88.34(n)1
    96.85(a)1    		   7 (16.68 cM)5
    209241  NM_013676.11  NP_038704.11 
     283148985 
    chicken
    (Gallus gallus)    		 Aves SUPT5H1 suppressor of Ty 5 homolog (S. cerevisiae) 84.12(n)
    95.08(a)    		   426493  NM_001031384.1  NP_001026555.1 
    lizard
    (Anolis carolinensis)    		 Reptilia SUPT5H6
    		 suppressor of Ty 5 homolog (S. cerevisiae)
    		 95(a)
    		 1 ↔ 1
    		 GL343635.1(350882-380593)
    African clawed frog
    (Xenopus laevis)    		 Amphibia Xl.50442 Xenopus laevis transcribed sequence with moderate similarity to protein refNP_003160.1 (H.sapiens) suppressor of Ty 5 homolog (S. cerevisiae); suppressor of Ty (S.cerevisiae) 5 homolog [Homo sapiens] less 76.12(n)    CA971229.1 
    zebrafish
    (Danio rerio)    		 Actinopterygii supt5h2 suppressor of Ty 5 homolog (S. cerevisiae) 79.52(n)   64275  AF288409.1 
    fruit fly
    (Drosophila melanogaster)    		 Insecta Spt51 , 3 transcription transcription elongation
    factor3
    Spt51    		 53(a)3
    60.38(n)1
    58.95(a)1    		   534421  NM_144353.31  NP_652610.11 
    worm
    (Caenorhabditis elegans)    		 Secernentea spt-51 spt-5 49.29(n)
    45.29(a)    		   178143  NM_069882.5  NP_502283.1 
    baker's yeast
    (Saccharomyces cerevisiae)    		 Saccharomycetes SPT5(YML010W)4
    SPT51    		 Protein involved in regulating Pol I and Pol II transcription and pre-mRNA processing; forms a complex with Spt4p; contains a C-terminal repeat domain that is a target for phosphorylation by Sgv1p less4
    SPT51    		 42.36(n)1
    34.06(a)1    		   13(247677-250868)4
    8549991, 4  NP_013703.11, 4 
    thale cress
    (Arabidopsis thaliana)    		 eudicotyledons GTA21 GTA2 46.46(n)
    38.28(a)    		   826391  NM_116904.5  NP_192575.3 
    rice
    (Oryza sativa)    		 Liliopsida Os02g07720001 Os02g0772000 47.82(n)
    38.86(a)    		   9267296  NM_001186230.1  NP_001173159.1 


    ENSEMBL Gene Tree for SUPT5H (if available)
    TreeFam Gene Tree for SUPT5H (if available)

    Paralogs
    for SUPT5H gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Genomic Variants
    for SUPT5H gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
    About This Section

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    Selected SNPs for SUPT5H (see all 878)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 19 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs2008231051,2
    		Cuntested139959486(+) AGCTTC/TGCCAT 8 F syn11Minor allele frequency- T:0.00EU 1323
    rs1887473611,2
    		--39934689(+) CCAGGA/GTGGTC 4 -- us2k10--------
    rs1451640311,2
    		C--39934778(+) CCCAGG/TTGTGT 4 -- us2k10--------
    rs1924558141,2
    		--39935053(+) GAACTC/GCTGAC 4 -- us2k10--------
    rs1833450511,2
    		--39935122(+) CGCGAC/GTGACA 4 -- us2k10--------
    rs113477771,2
    		C--39935196(+) TTTTT-/TAGAGA 4 -- us2k1 trp32Minor allele frequency- T:0.25NA 4
    rs1124054511,2
    		C,F--39935292(+) GGTTCG/AAGTGA 4 -- us2k11Minor allele frequency- A:0.50NA 2
    rs65088621,2
    		C,F--39935342(+) cacacA/Gccacc 4 -- us2k111Minor allele frequency- G:0.36NA WA CSA EA 372
    rs1391720681,2
    		C--39935358(+) ACATT-/AAAAAA 4 -- us2k10--------
    rs779728081,2
    		C,F--39935374(+) AAAAAT/CTGGAT 4 -- us2k11Minor allele frequency- C:0.09EA 120

    HapMap Linkage Disequilibrium report for SUPT5H (39926796 - 39967310 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for SUPT5H:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv523856CNV Loss19592680
    nsv911685CNV Loss21882294
    dgv3863n71CNV Loss21882294

    Human Gene Mutation Database (HGMD): SUPT5H
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SUPT5H
    DNA2.0 Custom Variant and Variant Library Synthesis for SUPT5H

    Disorders / Diseases
    for SUPT5H gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    TryGeneCards Plus    		 OMIM gene information: 602102    OMIM disorders: --

    7 diseases for SUPT5H:    About MalaCards
    wolf-hirschhorn syndrome    brain cancer    hiv-1    kaposi's sarcoma
    sarcoma    hepatitis    malaria

    1 disease from the University of Copenhagen DISEASES database for SUPT5H:
    Wolf-Hirschhorn syndrome

    SUPT5H for disorders           About GeneDecksing

    2 Novoseek inferred disease relationships for SUPT5H gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    immunodeficiency 29.9 1 16107696 (1)
    shock 0 2 11040216 (1), 15380072 (1)


    Export disorders for SUPT5H gene to outside databases

    Publications
    for SUPT5H gene

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

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    PubMed articles for SUPT5H gene, integrated from 10 sources (see all 107):
    (articles sorted by number of sources associating them with SUPT5H)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. Isolation, sequencing, and mapping of the human homologue of the yeast transcription factor, SPT5. (PubMed id 8975720)1, 2, 3, 9 Chiang P.-W.... Kurnit D.M. (Genomics 1996)
    2. Methylation of SPT5 regulates its interaction with RNA polymerase II and transcriptional elongation properties. (PubMed id 12718890)1, 2, 9 Kwak Y.T.... Gaynor R.B. (Mol. Cell 2003)
    3. Locus-specific requirements for Spt5 in transcriptional activation and repression in Drosophila. (PubMed id 15380072)1, 2, 9 Jennings B.H.... Ish-Horowicz D. (Curr. Biol. 2004)
    4. Positive transcription elongation factor B phosphorylates hSPT5 and RNA polymerase II carboxyl-terminal domain independently of cyclin- dependent kinase-activating kinase. (PubMed id 11145967)1, 2, 9 Kim J.B. and Sharp P.A. (J. Biol. Chem. 2001)
    5. Tat-SF1 protein associates with RAP30 and human SPT5 proteins. (PubMed id 10454543)1, 2, 9 Kim J.B.... Sharp P.A. (Mol. Cell. Biol. 1999)
    6. Coordination of transcription factor phosphorylation and histone methylation by the P-TEFb kinase during human immunodeficiency virus type 1 transcription. (PubMed id 15564463)1, 2, 9 Zhou M.... Kumar A. (J. Virol. 2004)
    7. Structure and function of the human transcription elongation factor DSIF. (PubMed id 10075709)1, 2, 9 Yamaguchi Y.... Handa H. (J. Biol. Chem. 1999)
    8. DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs. (PubMed id 9450929)1, 2, 9 Wada T....Handa H. (Genes Dev. 1998)
    9. Crystal structure of the human transcription elongation factor DSIF hSpt4 subunit in complex with the hSpt5 dimerization interface. (PubMed id 19860741)1, 2, 9 Wenzel S.... Wohrl B.M. (Biochem. J. 2010)
    10. Dichotomous but stringent substrate selection by the dual-function Cdk7 complex revealed by chemical genetics. (PubMed id 16327805)1, 2, 9 Larochelle S.... Fisher R.P. (Nat. Struct. Mol. Biol. 2006)

    External Searches for SUPT5H gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

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     ANDOR
    Aliases
    Disorders
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing SUPT5H gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section

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    Entrez Gene: 6829 HGNC: 11469 AceView: SUPT5H Ensembl:ENSG00000196235 euGenes: HUgn6829
    ECgene: SUPT5H H-InvDB: SUPT5H

    Other Databases showing SUPT5H gene

    (According to HUGE)
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    Specialized Databases showing SUPT5H gene

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for SUPT5H Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SUPT5H Genetics and Cytogenetics in Oncology and Haematology

    Intellectual Property
    for SUPT5H gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section

    TryGeneCards Plus    		Patent Information for SUPT5H gene:
    Search GeneIP for patents involving SUPT5H

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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