Format

Send to:

Choose Destination

SUPT4H1 SPT4 homolog, DSIF elongation factor subunit [ Homo sapiens (human) ]

Gene ID: 6827, updated on 4-Nov-2018

Summary

Official Symbol
SUPT4H1provided by HGNC
Official Full Name
SPT4 homolog, DSIF elongation factor subunitprovided by HGNC
Primary source
HGNC:HGNC:11467
See related
Ensembl:ENSG00000213246 MIM:603555; Vega:OTTHUMG00000178926
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SPT4; SPT4H; SUPT4H; Supt4a
Summary
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]
Expression
Ubiquitous expression in bone marrow (RPKM 34.4), brain (RPKM 26.3) and 25 other tissues See more
Orthologs

Genomic context

See SUPT4H1 in Genome Data Viewer
Location:
17q22
Exon count:
5
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (58345175..58352238, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (56422536..56429599, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene TSPOAP1, SUPT4H1 and RNF43 antisense RNA 1 Neighboring gene Sharpr-MPRA regulatory regions 8228 and 8679 Neighboring gene microRNA 4736 Neighboring gene ring finger protein 43 Neighboring gene heat shock transcription factor 5 Neighboring gene SET pseudogene 3

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 Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat The SPT5/SPT4 complex, DSIF, associates with the HIV-1 transcription elongation complex (TEC) and are involved in the activation of transcriptional elongation by HIV-1 Tat PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA-binding transcription factor activity TAS
Traceable Author Statement
more info
PubMed 
RNA polymerase II complex binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein heterodimerization activity IPI
Inferred from Physical Interaction
more info
PubMed 
single-stranded RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
DSIF complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DSIF complex IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
transcription elongation factor SPT4
Names
DRB sensitivity-inducing factor 14 kDa subunit
DSIF p14
small hSpt4 subunit
suppressor of Ty 4 homolog 1

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_003168.2NP_003159.1  transcription elongation factor SPT4

    See identical proteins and their annotated locations for NP_003159.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the shorter transcript and encodes the functional protein.
    Source sequence(s)
    AA311965, AI342302, BG026473, U43923
    Consensus CDS
    CCDS11606.1
    UniProtKB/Swiss-Prot
    P63272
    Related
    ENSP00000225504.3, OTTHUMP00000260346, ENST00000225504.7, OTTHUMT00000444000
    Conserved Domains (1) summary
    cd07973
    Location:11108
    Spt4; Transcription elongation factor Spt4

RNA

  1. NR_073470.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site in the 5' exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AI342302, AI735030, BP196741, BP318625, BX331655, FN160415, U43923
    Related
    ENST00000577396.5, OTTHUMT00000444001

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

    Range
    58345175..58352238 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Support Center