Supt4a SPT4A, DSIF elongation factor subunit [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Supt4aprovided by MGI
Official Full Name: SPT4A, DSIF elongation factor subunitprovided by MGI
Primary source: MGI:MGI:107416
See related: Ensembl:ENSMUSG00000020485 AllianceGenome:MGI:107416
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Supt4h; Supt4h1; Supt4h1a
Summary: Predicted to enable RNA polymerase II complex binding activity and protein heterodimerization activity. Acts upstream of or within negative regulation of transcription elongation from RNA polymerase II promoter. Predicted to be located in nucleoplasm. Predicted to be part of DSIF complex. Is expressed in several structures, including genitourinary system; heart; liver; lung; and spleen. Orthologous to human SUPT4H1 (SPT4 homolog, DSIF elongation factor subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in liver E14 (RPKM 38.8), liver E14.5 (RPKM 36.0) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 C; 11 52.2 cM

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (87628377..87634449)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (87737551..87743623)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

reduction of SUPT4H in mouse brains is associated with decreased HTT protein aggregation, and in R6/2 mice, also with prolonged lifespan and delay of the motor impairment that normally develops in these animals.
Title: Effects on murine behavior and lifespan of selectively decreasing expression of mutant huntingtin allele by supt4h knockdown.
our findings indicate that Spt4 and Spt5 have essential functions in the DNA repair phase of immunoglobulin class switch recombination.
Title: The DSIF subunits Spt4 and Spt5 have distinct roles at various phases of immunoglobulin class switch recombination.
These findings indicate that Supt4h is differentially required for expression of the mutant Htt allele in mouse striatal neurons.
Title: Spt4 is selectively required for transcription of extended trinucleotide repeats.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH35987 (e-PCR)
- UniSTS:8224

RH98919 (e-PCR)
- UniSTS:84783

D12S1371 (e-PCR)
- UniSTS:153655

D17S1419E (e-PCR)
- UniSTS:14910

RH68148 (e-PCR)
- UniSTS:77415

RH125346 (e-PCR)
- UniSTS:162168

Supt4h (e-PCR), detects polymorphism
- UniSTS:144522

RH70634 (e-PCR)
- UniSTS:64151

MARC_4325-4326:991938466:1 (e-PCR)
- UniSTS:231081

MARC_4325-4326:996679570:1 (e-PCR)
- UniSTS:231081

WI-21001 (e-PCR)
- UniSTS:79542

Supt4h (e-PCR), detects polymorphism
- UniSTS:256959

MARC_3557-3558:966881413:1 (e-PCR)
- UniSTS:269274

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables RNA polymerase II complex binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in negative regulation of DNA-templated transcription, elongation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription, elongation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription elongation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription elongation by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription elongation by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in transcription elongation-coupled chromatin remodeling	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of DSIF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of DSIF complex	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: transcription elongation factor SPT4-A

Names: DRB sensitivity-inducing factor small subunit 1; DSIF small subunit 1; Transcription elongation factor SPT4-A; suppressor of Ty 4 homolog 1; suppressor of Ty 4A; transcription elongation factor SPT4 1

NCBI Reference Sequences (RefSeq)

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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)

NM_001355753.1 → NP_001342682.1 transcription elongation factor SPT4-A isoform 2

Status: VALIDATED

Source sequence(s)

AK002990, AL604022, BQ176059, W47755

Conserved Domains (1) summary

cd07973
Location:42 → 90

Spt4; Transcription elongation factor Spt4
NM_009296.2 → NP_033322.1 transcription elongation factor SPT4-A isoform 1

See identical proteins and their annotated locations for NP_033322.1

Status: VALIDATED

Source sequence(s)

BQ176059, DV044501, DV061290

Consensus CDS

CCDS36270.1

UniProtKB/Swiss-Prot

B2KGH6, P63271, Q3TIA2, Q5NCP8, Q5NCP9, Q5NCQ0

Related

ENSMUSP00000091487.6, ENSMUST00000093955.12

Conserved Domains (1) summary

cd07973
Location:11 → 108

Spt4; Transcription elongation factor Spt4

RNA

NR_149756.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (3) is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AK002990, AL604022, BQ176059, DV061290, W47755

Related

ENSMUST00000152700.8
NR_149757.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (4) is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AK002990, AL604022, BQ176059, DV061290

Related

ENSMUST00000141169.2