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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SUPT5H Gene

protein-coding   GIFtS: 58
GCID: GC19P039936

Suppressor Of Ty 5 Homolog (S. Cerevisiae)

(Previous name: suppressor of Ty (S.cerevisiae) 5 homolog)
Microbiology & Infectious Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

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


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

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 kaposi's sarcoma, and among its related super-pathways are Processing of Capped Intron-Containing Pre-mRNA and Formation of HIV-1 elongation complex containing HIV-1 Tat. 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


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000019.9  NT_011109.16  NC_018930.2  
Regulatory elements:
   SABiosciences 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 plasmidSUPT5H promoter sequence
   Search SABiosciences Chromatin IP Primers for SUPT5H

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays 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

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

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
Subcellular location: Nucleus
Sequence caution: Sequence=BAD92494.1; Type=Erroneous initiation;
4 PDB 3D structures from and Proteopedia for SUPT5H:
2DO3 (3D)        2E6Z (3D)        2E70 (3D)        3H7H (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:

  • UniProtKB: Methylated by PRMT1/HRMT1L2 and PRMT5/SKB1. Methylation negatively regulates interaction with P-TEFb and RNA
    polymerase II
  • UniProtKB: 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
    mitosis
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O00267

  • SUPT5H Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SUPT5H Protein Expression
    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
    Human Recombinant Protein Products for SUPT5H: 
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    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for SUPT5H 

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



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    5/7 InterPro protein domains (see all 7):
     IPR017071 TF_Spt5
     IPR006645 Transcrpt_antiterm_NusG_N
     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


    (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,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    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): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003682chromatin binding IEA--
    GO:0005515protein binding IPI10075709
    GO:0019899enzyme binding IPI10075709
    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 - Custom generated mouse model solutions for SUPT5H 
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    (Pathways according to EMD Millipore, 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 SABiosciences, 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 Oct 2013 via Entrez Gene).
    About This Section

    SuperPaths for SUPT5H About   (see all 7)                                                                                              See pathways by source

    SuperPathSelected contained pathways About (see all per SuperPath)
    1mRNA Splicing - Major Pathway
    mRNA Processing0.85
    mRNA processing0.46
    2Formation of RNA Pol II elongation complex
    RNA Pol II CTD phosphorylation and interaction with CE0.93
    Formation of HIV elongation complex in the absence of HIV Tat0.76
    RNA Pol II CTD phosphorylation and interaction with CE0.93
    Elongation arrest and recovery0.74
    mRNA Capping0.93
    Pausing and recovery of HIV elongation0.74
    HIV Transcription Elongation0.78
    HIV elongation arrest and recovery0.74
    3HIV Life Cycle
    HIV Life Cycle0.92
    HIV Infection0.61
    Late Phase of HIV Life Cycle0.92
    4Transcription
    Transcription0.69
    RNA Polymerase II Transcription0.69
    5Generic Transcription Pathway
    Gene Expression0.47

    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

    5/27        Reactome Pathways for SUPT5H (see all 27)
        Formation of RNA Pol II elongation complex
    Pausing and recovery of Tat-mediated HIV elongation
    Tat-mediated HIV elongation arrest and recovery
    Tat-mediated elongation of the HIV-1 transcript
    Late Phase of HIV Life Cycle



    SUPT5H for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for SUPT5H

    5/203 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): 5/19 biological process terms (GO ID links to tree view) (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-dependent transcription, elongation IDA10075709
    GO:0006357regulation of transcription from RNA polymerase II promoter ----
    GO:0006366transcription from RNA polymerase II promoter TAS--

    SUPT5H for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    SUPT5H for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
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    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)

    Search CenterWatch for drugs/clinical trials and news about SUPT5H / SPT5H

    (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,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    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
    18/19 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

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    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 

    24/32 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 

    24/471 AceView cDNA sequences (see all 471):

    AL526061 BU171811 BX413900 D20872 CR623112 AU141591 AU121927 AF052165 
    AA304902 CB129665 AF040253 BU166910 AA743559 BM827529 AW960806 BM013873 
    BU688238 BQ428302 BU075668 BI223682 CB528841 AA514292 BX100239 AA325168 

    GeneLoc Exon Structure

    5/8 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

    (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™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    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


    See SUPT5H Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SUPT5H

    SOURCE GeneReport for Unigene cluster: Hs.631604

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

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    (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

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for SUPT5H gene from 10/23 species (see all 23)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Supt55
    Supt5h1
    suppressor of Ty 5 homolog (S. cerevisiae)1, 5 88.99(n)1
    97.96(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) 84.65(n)
    96.19(a)
      426493  NM_001031384.1  NP_001026555.1 
    lizard
    (Anolis carolinensis)
    Reptilia SUPT5H6
    Uncharacterized protein
    95(a)
    1 ↔ 1
    GL343635.1(350882-380593)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.50442 Xenopus laevis transcribed sequence with moderate similarity more 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
    CG7626-PA1
    53(a)3
    58.6(n)1
    56.83(a)1
      534421  NM_144353.31  NP_652610.11 
    worm
    (Caenorhabditis elegans)
    Secernentea spt-51 Protein SPT-5 49.25(n)
    44.01(a)
      178143  NM_069882.4  NP_502283.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes SPT5(YML010W)4
    SPT51
    Protein involved in regulating Pol I and Pol II transcription more4
    Spt5p1
    42.65(n)1
    32.6(a)1
      13(247677-250868)4
    8549991, 4  NP_013703.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons GTA21 global transcription factor group A2 46.16(n)
    38.37(a)
      826391  NM_116904.5  NP_192575.3 
    rice
    (Oryza sativa)
    Liliopsida Os02g07720001 hypothetical protein 47.16(n)
    37.76(a)
      9267296  NM_001186230.1  NP_001173159.1 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (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) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/878 SNPs in SUPT5H are shown (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

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    (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
    OMIM gene information: 602102    OMIM disorders: --

    4 diseases for SUPT5H:    About MalaCards
    wolf-hirschhorn syndrome    kaposi's sarcoma    sarcoma    hepatitis

    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

    (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

    PubMed articles for SUPT5H gene, integrated from 9 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. (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. (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. (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. (2001)
    5. Tat-SF1 protein associates with RAP30 and human SPT5 proteins. (PubMed id 10454543)1, 2, 9 Kim J.B.... Sharp P.A. (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. (2004)
    7. Structure and function of the human transcription elongation factor DSIF. (PubMed id 10075709)1, 2, 9 Yamaguchi Y.... Handa H. (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. (1998)
    9. Crystal structure of the human transcription elongati on factor DSIF hSpt4 subunit in complex with the hSpt5 dimerization interface. (PubMed id 19860741)1, 2, 9 Wenzel S....WAPhrl B.M. (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. (2006)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    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, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 6829 HGNC: 11469 AceView: SUPT5H Ensembl:ENSG00000196235 euGenes: HUgn6829
    ECgene: SUPT5H H-InvDB: SUPT5H

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SUPT5H Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for SUPT5H Genetics and Cytogenetics in Oncology and Haematology

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