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SUPT6H SPT6 homolog, histone chaperone and transcription elongation factor [ Homo sapiens (human) ]

Gene ID: 6830, updated on 11-Oct-2020

Summary

Official Symbol
SUPT6Hprovided by HGNC
Official Full Name
SPT6 homolog, histone chaperone and transcription elongation factorprovided by HGNC
Primary source
HGNC:HGNC:11470
See related
Ensembl:ENSG00000109111 MIM:601333
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SPT6; SPT6H; emb-5
Expression
Ubiquitous expression in bone marrow (RPKM 15.3), ovary (RPKM 14.3) and 25 other tissues See more
Orthologs

Genomic context

See SUPT6H in Genome Data Viewer
Location:
17q11.2
Exon count:
41
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (28662183..28702679)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (26989221..27029255)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene SPAG5 antisense RNA 1 Neighboring gene KIAA0100 Neighboring gene stromal cell derived factor 2 Neighboring gene ribosomal protein S12 pseudogene 28 Neighboring gene Sharpr-MPRA regulatory region 10516 Neighboring gene protein interacting with cyclin A1 Neighboring gene RAB34, member RAS oncogene family

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of SPT6 by shRNA enhances HIV-1 replication in HIV-1-infected CD4+ T-cells and latently infected cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0162, MGC87943

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
RNA binding HDA PubMed 
histone binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
histone binding IDA
Inferred from Direct Assay
more info
PubMed 
nucleosome binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
RNA splicing IEA
Inferred from Electronic Annotation
more info
 
blastocyst formation IEA
Inferred from Electronic Annotation
more info
 
chromatin maintenance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA processing IEA
Inferred from Electronic Annotation
more info
 
mRNA transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mRNA transport IEA
Inferred from Electronic Annotation
more info
 
negative regulation of histone H3-K27 methylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
nucleosome organization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription elongation from RNA polymerase II promoter IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription elongation from RNA polymerase II promoter IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of isotype switching ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of mRNA export from nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
regulation of mRNA processing ISS
Inferred from Sequence or Structural Similarity
more info
 
regulation of muscle cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
transcription elongation from RNA polymerase II promoter IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription elongation from RNA polymerase II promoter TAS
Traceable Author Statement
more info
 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
nucleoplasm TAS
Traceable Author Statement
more info
 
transcription elongation factor complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcriptionally active chromatin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
transcription elongation factor SPT6
Names
histone chaperone suppressor of Ty6
suppressor of Ty 6 homolog
tat-CT2 protein
tat-cotransactivator 2 protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001320755.2NP_001307684.1  transcription elongation factor SPT6

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AL833607, AW135492, BC150268, BM727811, DB318397
    Consensus CDS
    CCDS32596.1
    UniProtKB/Swiss-Prot
    Q7KZ85
    Related
    ENSP00000338143.4, ENST00000347486.8
    Conserved Domains (10) summary
    smart00316
    Location:12271282
    S1; Ribosomal protein S1-like RNA-binding domain
    cd09918
    Location:13311415
    SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
    cd09928
    Location:14241515
    SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
    COG2183
    Location:3721353
    Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    pfam14639
    Location:775931
    YqgF; Holliday-junction resolvase-like of SPT6
    pfam09371
    Location:565623
    Tex_N; Tex-like protein N-terminal domain
    pfam14633
    Location:13041514
    SH2_2; SH2 domain
    pfam14635
    Location:9351038
    HHH_7; Helix-hairpin-helix motif
    pfam14641
    Location:348422
    HTH_44; Helix-turn-helix DNA-binding domain of SPT6
    pfam14878
    Location:10531157
    DLD; Death-like domain of SPT6
  2. NM_003170.5NP_003161.2  transcription elongation factor SPT6

    See identical proteins and their annotated locations for NP_003161.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AL833607, AW135492, BC150268, BM727811
    Consensus CDS
    CCDS32596.1
    UniProtKB/Swiss-Prot
    Q7KZ85
    Related
    ENSP00000319104.6, ENST00000314616.11
    Conserved Domains (10) summary
    smart00316
    Location:12271282
    S1; Ribosomal protein S1-like RNA-binding domain
    cd09918
    Location:13311415
    SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
    cd09928
    Location:14241515
    SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
    COG2183
    Location:3721353
    Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    pfam14639
    Location:775931
    YqgF; Holliday-junction resolvase-like of SPT6
    pfam09371
    Location:565623
    Tex_N; Tex-like protein N-terminal domain
    pfam14633
    Location:13041514
    SH2_2; SH2 domain
    pfam14635
    Location:9351038
    HHH_7; Helix-hairpin-helix motif
    pfam14641
    Location:348422
    HTH_44; Helix-turn-helix DNA-binding domain of SPT6
    pfam14878
    Location:10531157
    DLD; Death-like domain of SPT6

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    28662183..28702679
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017024978.1XP_016880467.1  transcription elongation factor SPT6 isoform X1

    UniProtKB/Swiss-Prot
    Q7KZ85
    Conserved Domains (10) summary
    smart00316
    Location:12271282
    S1; Ribosomal protein S1-like RNA-binding domain
    cd09918
    Location:13311415
    SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
    cd09928
    Location:14241515
    SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
    COG2183
    Location:3721353
    Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    pfam14639
    Location:775931
    YqgF; Holliday-junction resolvase-like of SPT6
    pfam09371
    Location:565623
    Tex_N; Tex-like protein N-terminal domain
    pfam14633
    Location:13041514
    SH2_2; SH2 domain
    pfam14635
    Location:9351038
    HHH_7; Helix-hairpin-helix motif
    pfam14641
    Location:348422
    HTH_44; Helix-turn-helix DNA-binding domain of SPT6
    pfam14878
    Location:10531157
    DLD; Death-like domain of SPT6
  2. XM_017024979.2XP_016880468.1  transcription elongation factor SPT6 isoform X1

    UniProtKB/Swiss-Prot
    Q7KZ85
    Conserved Domains (10) summary
    smart00316
    Location:12271282
    S1; Ribosomal protein S1-like RNA-binding domain
    cd09918
    Location:13311415
    SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
    cd09928
    Location:14241515
    SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
    COG2183
    Location:3721353
    Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    pfam14639
    Location:775931
    YqgF; Holliday-junction resolvase-like of SPT6
    pfam09371
    Location:565623
    Tex_N; Tex-like protein N-terminal domain
    pfam14633
    Location:13041514
    SH2_2; SH2 domain
    pfam14635
    Location:9351038
    HHH_7; Helix-hairpin-helix motif
    pfam14641
    Location:348422
    HTH_44; Helix-turn-helix DNA-binding domain of SPT6
    pfam14878
    Location:10531157
    DLD; Death-like domain of SPT6
  3. XM_017024980.1XP_016880469.1  transcription elongation factor SPT6 isoform X2

    UniProtKB/Swiss-Prot
    Q7KZ85
    Conserved Domains (10) summary
    smart00316
    Location:11041159
    S1; Ribosomal protein S1-like RNA-binding domain
    cd09918
    Location:12081292
    SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
    cd09928
    Location:13011392
    SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
    COG2183
    Location:2491230
    Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    pfam14639
    Location:652808
    YqgF; Holliday-junction resolvase-like of SPT6
    pfam09371
    Location:442500
    Tex_N; Tex-like protein N-terminal domain
    pfam14633
    Location:11811391
    SH2_2; SH2 domain
    pfam14635
    Location:812915
    HHH_7; Helix-hairpin-helix motif
    pfam14641
    Location:225299
    HTH_44; Helix-turn-helix DNA-binding domain of SPT6
    pfam14878
    Location:9301034
    DLD; Death-like domain of SPT6

RNA

  1. XR_001752595.1 RNA Sequence

  2. XR_001752596.1 RNA Sequence

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