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Aliases for SUPT4H1 Gene

Aliases for SUPT4H1 Gene

  • SPT4 Homolog, DSIF Elongation Factor Subunit 2 3 5
  • DRB Sensitivity-Inducing Factor 14 KDa Subunit 3 4
  • DSIF P14 3 4
  • SUPT4H 3 4
  • SPT4H 3 4
  • DRB Sensitivity-Inducing Factor Small Subunit 4
  • Suppressor Of Ty 4 Homolog 1 (S. Cerevisiae) 2
  • Suppressor Of Ty (S.Cerevisiae) 4 Homolog 1 2
  • Transcription Elongation Factor SPT4 3
  • Suppressor Of Ty 4 Homolog 1 3
  • Small HSpt4 Subunit 3
  • DSIF Small Subunit 4
  • Supt4a 3
  • HSPT4 4
  • SPT4 3

External Ids for SUPT4H1 Gene

Previous HGNC Symbols for SUPT4H1 Gene

  • SUPT4H

Previous GeneCards Identifiers for SUPT4H1 Gene

  • GC17M056166
  • GC17M058904
  • GC17M056764
  • GC17M056897
  • GC17M053777
  • GC17M056422
  • GC17M051783

Summaries for SUPT4H1 Gene

Entrez Gene Summary for SUPT4H1 Gene

  • This gene encodes the small subunit of DRB (5,6-dichloro-1-beta-d-ribofuranosylbenzimidazole) sensitivity-inducing factor (DSIF) complex, which regulates mRNA processing and transcription elongation by RNA polymerase II. The encoded protein is localized to the nucleus and interacts with the large subunit (SUPT5H) to form the DSIF complex. Related pseudogenes have been identified on chromosomes 2 and 12. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Nov 2012]

GeneCards Summary for SUPT4H1 Gene

SUPT4H1 (SPT4 Homolog, DSIF Elongation Factor Subunit) is a Protein Coding gene. Diseases associated with SUPT4H1 include Hiv-1. Among its related pathways are HIV Life Cycle and Formation of HIV elongation complex in the absence of HIV Tat. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding and protein heterodimerization activity.

UniProtKB/Swiss-Prot for SUPT4H1 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 SUPT4H1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SUPT4H1 Gene

Genomics for SUPT4H1 Gene

Regulatory Elements for SUPT4H1 Gene

Enhancers for SUPT4H1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH17G058327 1.8 FANTOM5 ENCODE dbSUPER 22.3 +15.4 15436 20.8 CREB3L1 AGO1 YBX1 YY1 SLC30A9 ZNF143 ZNF263 NFYC TBX21 MEF2D SUPT4H1 TSPOAP1 TRIM37 VEZF1 SRSF1 DYNLL2 TEX14 MTMR4 MPO RAD51C
GH17G058351 1.4 ENCODE dbSUPER 19.2 -0.1 -97 3.9 HDGF HNRNPUL1 PKNOX1 FOXA2 CREB3L1 ZFP64 ARID4B SIN3A YBX1 DMAP1 TSPOAP1 SUPT4H1 RAD51C RNF43 TRIM37 SKA2
GH17G058389 1.9 FANTOM5 Ensembl ENCODE dbSUPER 11.3 -38.0 -37997 2.5 HNRNPUL1 HDGF PKNOX1 FOXA2 MLX ZFP64 ARID4B SIN3A FEZF1 DMAP1 RNF43 TRIM37 ENSG00000264112 SUPT4H1 HSF5 SRSF1
GH17G058374 1.6 Ensembl ENCODE dbSUPER 11.9 -26.9 -26864 10.4 HNRNPUL1 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 ZBTB7B YY1 TRIM37 RAD51C RNF43 SUPT4H1 HSF5 LPO EPX OR4D1 MSX2P1 MTMR4
GH17G058287 1.1 Ensembl ENCODE 15.6 +63.5 63493 3.6 HDAC1 PKNOX1 NFIB TCF12 FOS ZEB2 NFIC PRDM6 SMARCA4 PBX2 TSPOAP1 SUPT4H1 LPO HSF5 RNF43 MPO GC17P058303
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SUPT4H1 on UCSC Golden Path with GeneCards custom track

Promoters for SUPT4H1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000096247 -62 1801 HDGF HNRNPUL1 PKNOX1 FOXA2 CREB3L1 ZFP64 ARID4B SIN3A YBX1 DMAP1

Genomic Location for SUPT4H1 Gene

Chromosome:
17
Start:
58,345,175 bp from pter
End:
58,353,093 bp from pter
Size:
7,919 bases
Orientation:
Minus strand

Genomic View for SUPT4H1 Gene

Genes around SUPT4H1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SUPT4H1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SUPT4H1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SUPT4H1 Gene

Proteins for SUPT4H1 Gene

  • Protein details for SUPT4H1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P63272-SPT4H_HUMAN
    Recommended name:
    Transcription elongation factor SPT4
    Protein Accession:
    P63272
    Secondary Accessions:
    • B2R4X8
    • D3DTZ4
    • Q16550
    • Q62387
    • Q6ZP89

    Protein attributes for SUPT4H1 Gene

    Size:
    117 amino acids
    Molecular mass:
    13193 Da
    Quaternary structure:
    • Interacts with SUPT5H 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 HRMT1L2/PRMT1, HTATSF1/TATSF1, RNGTT/CAP1A, SKB1/PRMT5, SUPT6H, and can interact with PIN1.

    Three dimensional structures from OCA and Proteopedia for SUPT4H1 Gene

neXtProt entry for SUPT4H1 Gene

Post-translational modifications for SUPT4H1 Gene

  • Ubiquitination at Lys43 and posLast=8181
  • Modification sites at PhosphoSitePlus

Other Protein References for SUPT4H1 Gene

No data available for DME Specific Peptides for SUPT4H1 Gene

Domains & Families for SUPT4H1 Gene

Protein Domains for SUPT4H1 Gene

Suggested Antigen Peptide Sequences for SUPT4H1 Gene

Graphical View of Domain Structure for InterPro Entry

P63272

UniProtKB/Swiss-Prot:

SPT4H_HUMAN :
  • Belongs to the SPT4 family.
Family:
  • Belongs to the SPT4 family.
genes like me logo Genes that share domains with SUPT4H1: view

No data available for Gene Families for SUPT4H1 Gene

Function for SUPT4H1 Gene

Molecular function for SUPT4H1 Gene

GENATLAS Biochemistry:
putative chromatin structure regulator,yeast spt4 (suppressor of Ty) homolog,ubiquitously expressed
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.

Gene Ontology (GO) - Molecular Function for SUPT4H1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000993 RNA polymerase II core binding IBA --
GO:0003700 transcription factor activity, sequence-specific DNA binding TAS 8649394
GO:0003727 single-stranded RNA binding IBA --
GO:0005515 protein binding IPI 10075709
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with SUPT4H1: view
genes like me logo Genes that share phenotypes with SUPT4H1: view

Animal Models for SUPT4H1 Gene

MGI Knock Outs for SUPT4H1:

Animal Model Products

CRISPR Products

miRNA for SUPT4H1 Gene

miRTarBase miRNAs that target SUPT4H1

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for SUPT4H1 Gene

Localization for SUPT4H1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SUPT4H1 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 SUPT4H1 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for SUPT4H1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA,TAS 8649394
GO:0005654 nucleoplasm TAS --
GO:0032044 DSIF complex IDA 9450929
genes like me logo Genes that share ontologies with SUPT4H1: view

Pathways & Interactions for SUPT4H1 Gene

genes like me logo Genes that share pathways with SUPT4H1: view

Gene Ontology (GO) - Biological Process for SUPT4H1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IDA 9450929
GO:0006338 chromatin remodeling TAS 8649394
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated TAS 8786137
GO:0006357 regulation of transcription from RNA polymerase II promoter TAS 8649394
genes like me logo Genes that share ontologies with SUPT4H1: view

No data available for SIGNOR curated interactions for SUPT4H1 Gene

Transcripts for SUPT4H1 Gene

Unigene Clusters for SUPT4H1 Gene

Suppressor of Ty 4 homolog 1 (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SUPT4H1 Gene

No ASD Table

Relevant External Links for SUPT4H1 Gene

GeneLoc Exon Structure for
SUPT4H1
ECgene alternative splicing isoforms for
SUPT4H1

Expression for SUPT4H1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SUPT4H1 Gene

mRNA differential expression in normal tissues according to GTEx for SUPT4H1 Gene

This gene is overexpressed in Whole Blood (x4.9).

Protein differential expression in normal tissues from HIPED for SUPT4H1 Gene

This gene is overexpressed in Breast (14.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SUPT4H1 Gene



Protein tissue co-expression partners for SUPT4H1 Gene

NURSA nuclear receptor signaling pathways regulating expression of SUPT4H1 Gene:

SUPT4H1

SOURCE GeneReport for Unigene cluster for SUPT4H1 Gene:

Hs.439481

mRNA Expression by UniProt/SwissProt for SUPT4H1 Gene:

P63272-SPT4H_HUMAN
Tissue specificity: Widely expressed.

Evidence on tissue expression from TISSUES for SUPT4H1 Gene

  • Nervous system(3.4)
  • Lung(2.2)
  • Muscle(2.1)
genes like me logo Genes that share expression patterns with SUPT4H1: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for SUPT4H1 Gene

Orthologs for SUPT4H1 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SUPT4H1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SUPT4H1 34 35
  • 100 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 97 (a)
OneToMany
-- 35
  • 83 (a)
OneToMany
dog
(Canis familiaris)
Mammalia SUPT4H1 34 35
  • 96.3 (n)
mouse
(Mus musculus)
Mammalia Supt4a 34 16 35
  • 94.87 (n)
cow
(Bos Taurus)
Mammalia SUPT4H1 34 35
  • 94.02 (n)
rat
(Rattus norvegicus)
Mammalia Supt4h1 34
  • 93.73 (n)
chicken
(Gallus gallus)
Aves SUPT4H1 34 35
  • 81.77 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia supt4h1 34
  • 79.77 (n)
Str.5867 34
African clawed frog
(Xenopus laevis)
Amphibia Xl.23755 34
zebrafish
(Danio rerio)
Actinopterygii supt4h1 34 35
  • 78.63 (n)
Dr.29315 34
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1288 34
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005428 34
  • 65.79 (n)
fruit fly
(Drosophila melanogaster)
Insecta spt4 36 34 35
  • 63.1 (n)
worm
(Caenorhabditis elegans)
Secernentea spt-4 36 34 35
  • 57.46 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SPT4 35 37
  • 44 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5304 35
  • 68 (a)
OneToOne
bread mold
(Neurospora crassa)
Ascomycetes NCU03838 34
  • 48.6 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.956 34
Species where no ortholog for SUPT4H1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • 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)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SUPT4H1 Gene

ENSEMBL:
Gene Tree for SUPT4H1 (if available)
TreeFam:
Gene Tree for SUPT4H1 (if available)

Paralogs for SUPT4H1 Gene

Pseudogenes.org Pseudogenes for SUPT4H1 Gene

genes like me logo Genes that share paralogs with SUPT4H1: view

No data available for Paralogs for SUPT4H1 Gene

Variants for SUPT4H1 Gene

Sequence variations from dbSNP and Humsavar for SUPT4H1 Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type
rs1000187834 -- 58,348,264(+) TAAGC(A/G)TTTTT intron-variant
rs1000195216 -- 58,350,298(+) CACGA(A/G)GTCAG intron-variant
rs1000416541 -- 58,350,809(+) CCAGC(A/G)TGAGT intron-variant
rs1001197581 -- 58,353,982(+) CCTGT(-/G)GGTCC intron-variant, upstream-variant-2KB, utr-variant-3-prime
rs1001355375 -- 58,345,132(+) ATTTT(-/G)GCTGA intron-variant, downstream-variant-500B

Structural Variations from Database of Genomic Variants (DGV) for SUPT4H1 Gene

Variant ID Type Subtype PubMed ID
nsv509663 CNV insertion 20534489
nsv517229 CNV gain+loss 19592680
nsv575800 CNV gain 21841781
nsv819948 CNV loss 19587683

Variation tolerance for SUPT4H1 Gene

Residual Variation Intolerance Score: 48.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.17; 3.84% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SUPT4H1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SUPT4H1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SUPT4H1 Gene

Disorders for SUPT4H1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SUPT4H1 Gene - From: GeneCards

Disorder Aliases PubMed IDs
hiv-1
  • aids, slow progression to
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SUPT4H1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SUPT4H1
genes like me logo Genes that share disorders with SUPT4H1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SUPT4H1 Gene

Publications for SUPT4H1 Gene

  1. Structure and function of the human transcription elongation factor DSIF. (PMID: 10075709) Yamaguchi Y. … Handa H. (J. Biol. Chem. 1999) 2 3 4 64
  2. DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs. (PMID: 9450929) Wada T. … Handa H. (Genes Dev. 1998) 3 4 22 64
  3. Identification and analysis of a functional human homolog of the SPT4 gene of Saccharomyces cerevisiae. (PMID: 8649394) Hartzog G.A. … Winston F. (Mol. Cell. Biol. 1996) 3 4 22 64
  4. Isolation and characterization of the human and mouse homologues (SUPT4H and Supt4h) of the yeast SPT4 gene. (PMID: 8786137) Chiang P.-W. … Kurnit D.M. (Genomics 1996) 2 3 4 64
  5. Crystal structure of the human transcription elongation factor DSIF hSpt4 subunit in complex with the hSpt5 dimerization interface. (PMID: 19860741) Wenzel S. … Wohrl B.M. (Biochem. J. 2010) 3 4 64

Products for SUPT4H1 Gene

Sources for SUPT4H1 Gene

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