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Aliases for SUPT5H Gene

Aliases for SUPT5H Gene

  • SPT5 Homolog, DSIF Elongation Factor Subunit 2 3 5
  • DRB Sensitivity-Inducing Factor 160 KDa Subunit 3 4
  • DRB Sensitivity-Inducing Factor Large Subunit 3 4
  • Tat-Cotransactivator 1 Protein 3 4
  • DSIF Large Subunit 3 4
  • DSIF P160 3 4
  • SPT5H 3 4
  • HSPT5 3 4
  • SPT5 3 4
  • Suppressor Of Ty 5 Homolog (S. Cerevisiae) 2
  • Suppressor Of Ty (S.Cerevisiae) 5 Homolog 2
  • Transcription Elongation Factor SPT5 3
  • Suppressor Of Ty 5 Homolog 3
  • Tat-CT1 Protein 4
  • Tat-CT1 3

External Ids for SUPT5H Gene

Previous GeneCards Identifiers for SUPT5H Gene

  • GC19P040577
  • GC19P040327
  • GC19P044612
  • GC19P044628
  • GC19P039936
  • GC19P036382

Summaries for SUPT5H Gene

GeneCards Summary for SUPT5H Gene

SUPT5H (SPT5 Homolog, DSIF Elongation Factor Subunit) is a Protein Coding gene. Among its related pathways are Gene Expression and Formation of HIV-1 elongation complex containing HIV-1 Tat. Gene Ontology (GO) annotations related to this gene include chromatin binding.

UniProtKB/Swiss-Prot for SUPT5H Gene

  • 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

Additional gene information for SUPT5H Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SUPT5H Gene

Genomics for SUPT5H Gene

GeneHancer (GH) Regulatory Elements for SUPT5H Gene

Promoters and enhancers for SUPT5H Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH19J039444 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 661.8 +9.6 9578 3.1 HDGF PKNOX1 SMAD1 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 IRF4 SUPT5H GC19M039720 HNRNPL AKT2 ZNF780B ZNF780A RPS16 PSMC4 RN7SL566P PAK4
GH19J039397 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 105.3 -29.1 -29081 20 CLOCK MLX ZFP64 FEZF1 DMAP1 YBX1 IRF4 YY1 SLC30A9 ZNF213 ZFP36 PAF1 HNRNPL FBL ZNF780B SUPT5H RN7SL566P ZNF780A ENSG00000269688 AKT2
GH19J038647 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 67.5 -776.4 -776363 25.6 ZFP64 FEZF1 DMAP1 YY1 ZNF213 ZNF143 ZNF548 SP3 NFYC ZC3H11A ACTN4 HNRNPL ZFP30 ZNF607 ZNF781 ZNF573 SUPT5H ENSG00000267152 PAK4 RN7SL566P
GH19J039479 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 48.2 +44.7 44651 2.9 HDGF PKNOX1 CLOCK MLX ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 TIMM50 SUPT5H HNRNPL PAF1 FBL ZNF546 RPS16 ENSG00000269688 PSMC4 PAK4
GH19J039427 Promoter/Enhancer 2.9 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 35.7 -4.0 -4010 9.7 MLX ZFP64 DMAP1 IRF4 YY1 E2F8 ZNF416 ZNF143 SP3 NFYC RPS16 HNRNPL FBL ZNF780B AKT2 PLEKHG2 RN7SL566P ENSG00000269688 SUPT5H EID2B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SUPT5H on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SUPT5H gene promoter:
  • Pax-4a
  • GATA-1
  • YY1
  • ZIC2
  • HSF2

Genomic Locations for SUPT5H Gene

Genomic Locations for SUPT5H Gene
chr19:39,436,156-39,476,670
(GRCh38/hg38)
Size:
40,515 bases
Orientation:
Plus strand
chr19:39,926,796-39,967,310
(GRCh37/hg19)
Size:
40,515 bases
Orientation:
Plus strand

Genomic View for SUPT5H Gene

Genes around SUPT5H on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SUPT5H Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SUPT5H Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SUPT5H Gene

Proteins for SUPT5H Gene

  • Protein details for SUPT5H Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O00267-SPT5H_HUMAN
    Recommended name:
    Transcription elongation factor SPT5
    Protein Accession:
    O00267
    Secondary Accessions:
    • O43279
    • Q59G52
    • Q99639

    Protein attributes for SUPT5H Gene

    Size:
    1087 amino acids
    Molecular mass:
    121000 Da
    Quaternary structure:
    • 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.
    SequenceCaution:
    • Sequence=BAD92494.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SUPT5H Gene

    Alternative splice isoforms for SUPT5H Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SUPT5H Gene

Post-translational modifications for SUPT5H Gene

  • Methylated by PRMT1/HRMT1L2 and PRMT5/SKB1. Methylation negatively regulates interaction with P-TEFb and RNA polymerase II.
  • 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.
  • Ubiquitination at isoforms=2718, isoforms=2650, isoforms=2323, isoforms=2306, posLast=213213, posLast=199199, and posLast=147147
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SUPT5H Gene

Domains & Families for SUPT5H Gene

Gene Families for SUPT5H Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Graphical View of Domain Structure for InterPro Entry

O00267

UniProtKB/Swiss-Prot:

SPT5H_HUMAN :
  • Belongs to the SPT5 family.
Family:
  • Belongs to the SPT5 family.
genes like me logo Genes that share domains with SUPT5H: view

Function for SUPT5H Gene

Molecular function for SUPT5H Gene

UniProtKB/Swiss-Prot 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:
putative chromatin structure regulator yeast Spt5 homolog,(histones group)

Phenotypes From GWAS Catalog for SUPT5H Gene

Gene Ontology (GO) - Molecular Function for SUPT5H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IBA --
GO:0003682 chromatin binding IEA --
GO:0003723 RNA binding HDA 22658674
GO:0003729 mRNA binding IBA --
GO:0005515 protein binding IPI 10075709
genes like me logo Genes that share ontologies with SUPT5H: view
genes like me logo Genes that share phenotypes with SUPT5H: view

Animal Models for SUPT5H Gene

MGI Knock Outs for SUPT5H:
  • Supt5 Supt5<tm2a(KOMP)Wtsi>

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SUPT5H

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SUPT5H Gene

Localization for SUPT5H Gene

Subcellular locations from UniProtKB/Swiss-Prot for SUPT5H Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SUPT5H gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for SUPT5H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,IEA 10075709
GO:0005654 nucleoplasm TAS --
GO:0032044 DSIF complex IDA 9450929
genes like me logo Genes that share ontologies with SUPT5H: view

Pathways & Interactions for SUPT5H Gene

genes like me logo Genes that share pathways with SUPT5H: view

SIGNOR curated interactions for SUPT5H Gene

Is activated by:

Gene Ontology (GO) - Biological Process for SUPT5H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IMP 10075709
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription by RNA polymerase II IBA,IEA --
GO:0006366 transcription by RNA polymerase II TAS --
genes like me logo Genes that share ontologies with SUPT5H: view

Drugs & Compounds for SUPT5H Gene

(1) Additional Compounds for SUPT5H Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SUPT5H: view

Transcripts for SUPT5H Gene

Unigene Clusters for SUPT5H Gene

Suppressor of Ty 5 homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SUPT5H

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SUPT5H Gene

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:
SP6: - - - - - - - - - - - - - - - - - - - - -
SP7: - - - - - - - - - - - - -
SP8:

ExUns: 18 ^ 19 ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25a · 25b ^ 26 ^ 27a · 27b ^ 28a · 28b ^ 29a · 29b ^ 30a · 30b
SP1: - -
SP2:
SP3: - - - - - - - -
SP4:
SP5:
SP6:
SP7:
SP8:

Relevant External Links for SUPT5H Gene

GeneLoc Exon Structure for
SUPT5H
ECgene alternative splicing isoforms for
SUPT5H

Expression for SUPT5H Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SUPT5H Gene

Protein differential expression in normal tissues from HIPED for SUPT5H Gene

This gene is overexpressed in Peripheral blood mononuclear cells (13.3), CD8 Tcells (9.4), and Lymph node (9.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for SUPT5H Gene



Protein tissue co-expression partners for SUPT5H Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SUPT5H Gene:

SUPT5H

SOURCE GeneReport for Unigene cluster for SUPT5H Gene:

Hs.631604

mRNA Expression by UniProt/SwissProt for SUPT5H Gene:

O00267-SPT5H_HUMAN
Tissue specificity: Ubiquitously expressed.

Evidence on tissue expression from TISSUES for SUPT5H Gene

  • Nervous system(5)
  • Liver(4.3)
  • Muscle(4.3)
  • Pancreas(3.5)
  • Lung(2.8)
  • Blood(2.6)
genes like me logo Genes that share expression patterns with SUPT5H: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for SUPT5H Gene

Orthologs for SUPT5H Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SUPT5H Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SUPT5H 34 33
  • 99.51 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SUPT5H 34
  • 97 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SUPT5H 34 33
  • 93.2 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SUPT5H 34
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SUPT5H 34 33
  • 92.76 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Supt5h 33
  • 88.76 (n)
mouse
(Mus musculus)
Mammalia Supt5 16 34 33
  • 88.34 (n)
chicken
(Gallus gallus)
Aves SUPT5H 34 33
  • 84.12 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SUPT5H 34
  • 95 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia supt5h 33
  • 77.1 (n)
Str.2822 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.5044 33
zebrafish
(Danio rerio)
Actinopterygii supt5h 34 33 33
  • 76.79 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005021 33
  • 62.29 (n)
fruit fly
(Drosophila melanogaster)
Insecta Spt5 34 35 33
  • 60.38 (n)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea spt-5 34 33
  • 49.29 (n)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ADR187W 33
  • 45.32 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0B00891g 33
  • 43.27 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SPT5 36 34 33
  • 42.36 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons GTA2 33
  • 46.46 (n)
rice
(Oryza sativa)
Liliopsida Os02g0772000 33
  • 47.82 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 58 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU06929 33
  • 47.67 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes spt5 33
  • 47.05 (n)
Species where no ortholog for SUPT5H was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SUPT5H Gene

ENSEMBL:
Gene Tree for SUPT5H (if available)
TreeFam:
Gene Tree for SUPT5H (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SUPT5H: view image

Paralogs for SUPT5H Gene

No data available for Paralogs for SUPT5H Gene

Variants for SUPT5H Gene

Sequence variations from dbSNP and Humsavar for SUPT5H Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000035407 -- 39,444,068(+) CTC/C upstream_transcript_variant
rs1000094731 -- 39,471,970(+) C/T intron_variant
rs1000139640 -- 39,443,744(+) C/A upstream_transcript_variant
rs1000207127 -- 39,449,222(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000275443 -- 39,447,020(+) C/G genic_upstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SUPT5H Gene

Variant ID Type Subtype PubMed ID
nsv523856 CNV loss 19592680
nsv953573 CNV deletion 24416366

Variation tolerance for SUPT5H Gene

Residual Variation Intolerance Score: 0.867% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.90; 35.41% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SUPT5H Gene

Human Gene Mutation Database (HGMD)
SUPT5H
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SUPT5H

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SUPT5H Gene

Disorders for SUPT5H Gene

Additional Disease Information for SUPT5H

No disorders were found for SUPT5H Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SUPT5H Gene

Publications for SUPT5H Gene

  1. Structure and function of the human transcription elongation factor DSIF. (PMID: 10075709) Yamaguchi Y … Handa H (The Journal of biological chemistry 1999) 2 3 4 22 58
  2. Isolation, sequencing, and mapping of the human homologue of the yeast transcription factor, SPT5. (PMID: 8975720) Chiang PW … Kurnit DM (Genomics 1996) 2 3 4 22 58
  3. Crystal structure of the human transcription elongation factor DSIF hSpt4 subunit in complex with the hSpt5 dimerization interface. (PMID: 19860741) Wenzel S … Wöhrl BM (The Biochemical journal 2009) 3 4 22 58
  4. Dichotomous but stringent substrate selection by the dual-function Cdk7 complex revealed by chemical genetics. (PMID: 16327805) Larochelle S … Fisher RP (Nature structural & molecular biology 2006) 3 4 22 58
  5. Human Spt6 stimulates transcription elongation by RNA polymerase II in vitro. (PMID: 15060154) Endoh M … Handa H (Molecular and cellular biology 2004) 3 4 22 58

Products for SUPT5H Gene