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Aliases for SUPT16H Gene

Aliases for SUPT16H Gene

  • SPT16 Homolog, Facilitates Chromatin Remodeling Subunit 2 3 5
  • Chromatin-Specific Transcription Elongation Factor 140 KDa Subunit 3 4
  • Facilitates Chromatin Transcription Complex Subunit SPT16 3 4
  • Facilitates Chromatin Remodeling 140 KDa Subunit 2 3
  • FACT 140 KDa Subunit 3 4
  • FACTP140 3 4
  • HSPT16 3 4
  • Suppressor Of Ty 16 Homolog (S. Cerevisiae) 2
  • Suppressor Of Ty (S.Cerevisiae) 16 Homolog 2
  • Suppressor Of Ty 16 Homolog 3
  • FACT Complex Subunit SPT16 3
  • SPT16/CDC68 3
  • FACT140 4
  • CDC68 3
  • SPT16 3

External Ids for SUPT16H Gene

Previous GeneCards Identifiers for SUPT16H Gene

  • GC00U990361
  • GC14M015606
  • GC14M019809
  • GC14M020889
  • GC14M021819
  • GC14M001939

Summaries for SUPT16H Gene

Entrez Gene Summary for SUPT16H Gene

  • Transcription of protein-coding genes can be reconstituted on naked DNA with only the general transcription factors and RNA polymerase II. However, this minimal system cannot transcribe DNA packaged into chromatin, indicating that accessory factors may facilitate access to DNA. One such factor, FACT (facilitates chromatin transcription), interacts specifically with histones H2A/H2B to effect nucleosome disassembly and transcription elongation. FACT is composed of an 80 kDa subunit and a 140 kDa subunit; this gene encodes the 140 kDa subunit. [provided by RefSeq, Feb 2009]

GeneCards Summary for SUPT16H Gene

SUPT16H (SPT16 Homolog, Facilitates Chromatin Remodeling Subunit) is a Protein Coding gene. Diseases associated with SUPT16H include Ceroid Lipofuscinosis, Neuronal, 2 and Leukoencephalopathy With Vanishing White Matter. Among its related pathways are Formation of HIV elongation complex in the absence of HIV Tat and HIV Life Cycle. GO annotations related to this gene include poly(A) RNA binding.

UniProtKB/Swiss-Prot for SUPT16H Gene

  • Component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. During transcription elongation the FACT complex acts as a histone chaperone that both destabilizes and restores nucleosomal structure. It facilitates the passage of RNA polymerase II and transcription by promoting the dissociation of one histone H2A-H2B dimer from the nucleosome, then subsequently promotes the reestablishment of the nucleosome following the passage of RNA polymerase II. The FACT complex is probably also involved in phosphorylation of Ser-392 of p53/TP53 via its association with CK2 (casein kinase II).

Gene Wiki entry for SUPT16H Gene

Additional gene information for SUPT16H Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SUPT16H Gene

Genomics for SUPT16H Gene

Regulatory Elements for SUPT16H Gene

Enhancers for SUPT16H 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
GH14H021092 2 FANTOM5 Ensembl ENCODE dbSUPER 53 +283.2 283213 18 MLX ZFP64 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC ZC3H11A SSRP1 METTL3 SUPT16H CHD8 METTL17 APEX1 PNP TEP1 ARHGEF40 TOX4 SNORA79B
GH14H020657 1.3 Ensembl ENCODE 73.6 +726.9 726912 1 HDGF PKNOX1 SIN3A GLI4 ZNF2 GTF3C2 GLIS2 FOS KLF7 ZNF548 METTL3 SUPT16H METTL17 ENSG00000258515 CHD8 TEP1 ENSG00000258768 TTC5 PARP2 PIP4P1
GH14H021263 1.6 Ensembl ENCODE dbSUPER 57.4 +117.6 117585 7 HDGF PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A DMAP1 ZNF2 ZBTB7B SUPT16H METTL3 CHD8 METTL17 HNRNPC ENSG00000258515 PIP4P1 RAB2B APEX1 TRAV8-5
GH14H020453 1.2 ENCODE 67.3 +929.1 929097 3 HDGF PKNOX1 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B SUPT16H METTL17 OSGEP ENSG00000258515 APEX1 TEP1 PIP4P1 ZNF219 RNASE9 RNASE12
GH14H020622 1.3 Ensembl ENCODE 58.7 +759.9 759891 3 HNRNPUL1 SIN3A FEZF1 ZNF2 ZNF143 FOS ZC3H11A ZNF592 SSRP1 ZNF610 METTL3 SUPT16H CHD8 PARP2 METTL17 ENSG00000258515 TEP1 ENSG00000258768 OSGEP TOX4
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SUPT16H on UCSC Golden Path with GeneCards custom track

Promoters for SUPT16H Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000066479 839 2401 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766

Genomic Location for SUPT16H Gene

Chromosome:
14
Start:
21,351,472 bp from pter
End:
21,384,639 bp from pter
Size:
33,168 bases
Orientation:
Minus strand

Genomic View for SUPT16H Gene

Genes around SUPT16H on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SUPT16H Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SUPT16H Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SUPT16H Gene

Proteins for SUPT16H Gene

  • Protein details for SUPT16H Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5B9-SP16H_HUMAN
    Recommended name:
    FACT complex subunit SPT16
    Protein Accession:
    Q9Y5B9
    Secondary Accessions:
    • Q6GMT8
    • Q6P2F1
    • Q6PJM1
    • Q9NRX0

    Protein attributes for SUPT16H Gene

    Size:
    1047 amino acids
    Molecular mass:
    119914 Da
    Quaternary structure:
    • Interacts with MYOG (via C-terminal region) (By similarity). Component of the FACT complex, a stable heterodimer of SSRP1 and SUPT16H (PubMed:10421373). Also component of a CK2-SPT16-SSRP1 complex which forms following UV irradiation, composed of SSRP1, SUPT16H, CSNK2A1, CSNK2A2 and CSNK2B (PubMed:11239457, PubMed:12393879). Interacts with NEK9 (PubMed:14660563). Binds to histone H2A-H2B (PubMed:10421373). Identified in a centromere complex containing histones H2A, H2B and H4, and at least CENPA, CENPB, CENPC, CENPT, CENPN, HJURP, SUPT16H, SSRP1 and RSF1 (PubMed:27499292). Interacts with GTF2E2 (PubMed:10792464).
    SequenceCaution:
    • Sequence=AAH64561.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305}; Sequence=AAH73849.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SUPT16H Gene

neXtProt entry for SUPT16H Gene

Post-translational modifications for SUPT16H Gene

  • ADP-ribosylated. ADP-ribosylation by PARP1 is induced by genotoxic stress and correlates with dissociation of FACT from chromatin.
  • Ubiquitination at posLast=8686, Lys120, posLast=196196, Lys280, Lys366, posLast=426426, posLast=504504, Lys513, posLast=596596, Lys663, Lys696, posLast=781781, posLast=786786, and posLast=904904
  • Modification sites at PhosphoSitePlus

Other Protein References for SUPT16H Gene

No data available for DME Specific Peptides for SUPT16H Gene

Domains & Families for SUPT16H Gene

Gene Families for SUPT16H Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for SUPT16H Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y5B9

UniProtKB/Swiss-Prot:

SP16H_HUMAN :
  • The C-terminal Glu-rich acidic region is essential for FACT activity.
  • Belongs to the peptidase M24 family. SPT16 subfamily.
Domain:
  • The C-terminal Glu-rich acidic region is essential for FACT activity.
Family:
  • Belongs to the peptidase M24 family. SPT16 subfamily.
genes like me logo Genes that share domains with SUPT16H: view

Function for SUPT16H Gene

Molecular function for SUPT16H Gene

UniProtKB/Swiss-Prot Function:
Component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. During transcription elongation the FACT complex acts as a histone chaperone that both destabilizes and restores nucleosomal structure. It facilitates the passage of RNA polymerase II and transcription by promoting the dissociation of one histone H2A-H2B dimer from the nucleosome, then subsequently promotes the reestablishment of the nucleosome following the passage of RNA polymerase II. The FACT complex is probably also involved in phosphorylation of Ser-392 of p53/TP53 via its association with CK2 (casein kinase II).

Phenotypes From GWAS Catalog for SUPT16H Gene

Gene Ontology (GO) - Molecular Function for SUPT16H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding IDA 22658674
GO:0005515 protein binding IPI 16902406
GO:0031491 nucleosome binding IBA --
GO:0042393 histone binding IBA --
genes like me logo Genes that share ontologies with SUPT16H: view
genes like me logo Genes that share phenotypes with SUPT16H: view

Animal Model Products

  • Taconic Biosciences Mouse Models for SUPT16H

CRISPR Products

miRNA for SUPT16H Gene

miRTarBase miRNAs that target SUPT16H

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SUPT16H
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SUPT16H Gene

Localization for SUPT16H Gene

Subcellular locations from UniProtKB/Swiss-Prot for SUPT16H Gene

Nucleus. Chromosome. Note=Colocalizes with RNA polymerase II on chromatin. Recruited to actively transcribed loci.

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 SUPT16H gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleus (3)
  • Nucleoli fibrillar center (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SUPT16H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm TAS --
GO:0005694 chromosome IEA --
GO:0035101 FACT complex IBA --
genes like me logo Genes that share ontologies with SUPT16H: view

Pathways & Interactions for SUPT16H Gene

genes like me logo Genes that share pathways with SUPT16H: view

Gene Ontology (GO) - Biological Process for SUPT16H Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006260 DNA replication IEA --
GO:0006281 DNA repair IEA --
GO:0006337 nucleosome disassembly TAS 10421373
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with SUPT16H: view

No data available for SIGNOR curated interactions for SUPT16H Gene

Drugs & Compounds for SUPT16H Gene

No Compound Related Data Available

Transcripts for SUPT16H Gene

Unigene Clusters for SUPT16H Gene

Suppressor of Ty 16 homolog (S. cerevisiae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SUPT16H
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for SUPT16H Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^
SP1: - - - -
SP2:
SP3: -
SP4: - -
SP5: -
SP6:

ExUns: 22a · 22b ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28a · 28b
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:

Relevant External Links for SUPT16H Gene

GeneLoc Exon Structure for
SUPT16H
ECgene alternative splicing isoforms for
SUPT16H

Expression for SUPT16H Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SUPT16H Gene

Protein differential expression in normal tissues from HIPED for SUPT16H Gene

This gene is overexpressed in Peripheral blood mononuclear cells (10.1), Tlymphocyte (9.2), and Fetal ovary (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SUPT16H Gene



Protein tissue co-expression partners for SUPT16H Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SUPT16H Gene:

SUPT16H

SOURCE GeneReport for Unigene cluster for SUPT16H Gene:

Hs.213724

mRNA Expression by UniProt/SwissProt for SUPT16H Gene:

Q9Y5B9-SP16H_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for SUPT16H Gene

  • Nervous system(4.7)
  • Eye(4.3)
genes like me logo Genes that share expression patterns with SUPT16H: view

Primer Products

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 SUPT16H Gene

Orthologs for SUPT16H Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SUPT16H Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SUPT16H 33 34
  • 99.68 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 96 (a)
OneToMany
-- 34
  • 89 (a)
OneToMany
-- 34
  • 87 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia SUPT16H 34
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SUPT16H 33 34
  • 94.14 (n)
cow
(Bos Taurus)
Mammalia SUPT16H 33 34
  • 93.73 (n)
mouse
(Mus musculus)
Mammalia Supt16 33 16 34
  • 90.83 (n)
rat
(Rattus norvegicus)
Mammalia Supt16h 33
  • 90.29 (n)
lizard
(Anolis carolinensis)
Reptilia SUPT16H 34
  • 88 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.14979 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.7983 33
zebrafish
(Danio rerio)
Actinopterygii supt16h 33 34
  • 74.86 (n)
fruit fly
(Drosophila melanogaster)
Insecta dre4 33 34
  • 60.99 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP006817 33
  • 60.54 (n)
worm
(Caenorhabditis elegans)
Secernentea F55A3.3 33 34
  • 54.19 (n)
F55A3.7 34
  • 42 (a)
OneToMany
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AER360C 33
  • 48.85 (n)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F09889g 33
  • 47.57 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SPT16 33 34 36
  • 47.06 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons SPT16 33
  • 48.49 (n)
rice
(Oryza sativa)
Liliopsida Os04g0321600 33
  • 48.65 (n)
barley
(Hordeum vulgare)
Liliopsida Hv.10981 33
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10932 34
  • 55 (a)
OneToOne
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes spt16 33
  • 50.77 (n)
bread mold
(Neurospora crassa)
Ascomycetes NCU01164 33
  • 49.4 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.2568 33
Species where no ortholog for SUPT16H 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)
  • beta proteobacteria (Neisseria meningitidis)
  • chicken (Gallus gallus)
  • 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 SUPT16H Gene

ENSEMBL:
Gene Tree for SUPT16H (if available)
TreeFam:
Gene Tree for SUPT16H (if available)

Paralogs for SUPT16H Gene

Pseudogenes.org Pseudogenes for SUPT16H Gene

genes like me logo Genes that share paralogs with SUPT16H: view

No data available for Paralogs for SUPT16H Gene

Variants for SUPT16H Gene

Sequence variations from dbSNP and Humsavar for SUPT16H Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs376517859 Pathogenic 21,351,102(+) CCAAC(A/G)GTTGT downstream-variant-500B, splice-acceptor-variant
rs80191010 Likely benign 21,351,226(+) ACAAG(C/T)GCTAT downstream-variant-500B, utr-variant-3-prime
rs182458550 Uncertain significance 21,351,297(+) ATAAC(A/C/G)TGAAT downstream-variant-500B, utr-variant-3-prime
rs367905297 Uncertain significance 21,385,739(+) TCATC(A/G)TCATC intron-variant, upstream-variant-2KB, reference, synonymous-codon
rs370767680 Uncertain significance 21,351,260(+) AACCA(C/T)AGTAA downstream-variant-500B, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for SUPT16H Gene

Variant ID Type Subtype PubMed ID
esv3633712 CNV loss 21293372
esv3633713 CNV loss 21293372
nsv976317 CNV duplication 23825009

Variation tolerance for SUPT16H Gene

Residual Variation Intolerance Score: 7.63% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.55; 44.47% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SUPT16H Gene

Human Gene Mutation Database (HGMD)
SUPT16H
SNPedia medical, phenotypic, and genealogical associations of SNPs for
SUPT16H

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SUPT16H Gene

Disorders for SUPT16H Gene

MalaCards: The human disease database

(2) MalaCards diseases for SUPT16H Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
ceroid lipofuscinosis, neuronal, 2
  • neuronal ceroid lipofuscinosis 2
leukoencephalopathy with vanishing white matter
  • ovarioleukodystrophy
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for SUPT16H

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SUPT16H
genes like me logo Genes that share disorders with SUPT16H: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SUPT16H Gene

Publications for SUPT16H Gene

  1. A DNA damage-induced p53 serine 392 kinase complex contains CK2, hSpt16, and SSRP1. (PMID: 11239457) Keller DM … Lu H (Molecular cell 2001) 2 3 4 60
  2. FACT relieves DSIF/NELF-mediated inhibition of transcriptional elongation and reveals functional differences between P-TEFb and TFIIH. (PMID: 10912001) Wada T … Handa H (Molecular cell 2000) 3 4 22 60
  3. The chromatin-specific transcription elongation factor FACT comprises human SPT16 and SSRP1 proteins. (PMID: 10421373) Orphanides G … Reinberg D (Nature 1999) 3 4 22 60
  4. FACT, a factor that facilitates transcript elongation through nucleosomes. (PMID: 9489704) Orphanides G … Reinberg D (Cell 1998) 2 3 4 60
  5. Modulation of nucleosome-binding activity of FACT by poly(ADP-ribosyl)ation. (PMID: 16682447) Huang JY … Lee SC (Nucleic acids research 2006) 3 4 60

Products for SUPT16H Gene

Sources for SUPT16H Gene

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