Spt6 Spt6 [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Spt6provided by FlyBase
Official Full Name: Spt6provided by FlyBase
Primary source: FLYBASE:FBgn0028982
Locus tag: Dmel_CG12225
See related: AllianceGenome:FB:FBgn0028982
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: CG12225; Dmel\CG12225; dspt6; dSpt6; Dspt6; l(1)G0063; spt 6; spt6; SPT6
Summary: Enables RNA polymerase II complex binding activity and chromatin binding activity. Involved in follicle cell of egg chamber development; positive regulation of macromolecule biosynthetic process; and transcription by RNA polymerase II. Located in chromosomal region; euchromatin; and histone locus body. Part of transcription elongation factor complex. Is expressed in adult head; female germline cyst; germline stem cell; and organism. Orthologous to human SUPT6H (SPT6 homolog, histone chaperone and transcription elongation factor). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 5E4-5E4; 1-16 cM

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	X	NC_004354.4 (6267797..6274984)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	X	NC_004354.3 (6161830..6169017)

Chromosome X - NC_004354.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Spt6 is a maintenance factor for centromeric CENP-A.
Title: Spt6 is a maintenance factor for centromeric CENP-A.
Data show that Spt6 can modulate the elongation rate of RNA polymerase II (Pol II) on naked or chromatin-reconstituted templates in vitro.
Title: Spt6 enhances the elongation rate of RNA polymerase II in vivo.
Drosophila Spt6 (dSpt6) co-purifies with the exosome, a complex of 3' to 5' exoribonucleases that is implicated in the processing of structural RNA and in the degradation of improperly processed pre-mRNA
Title: The RNA processing exosome is linked to elongating RNA polymerase II in Drosophila.

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Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II complex binding	IDA Inferred from Direct Assay more info	PubMed
enables chromatin binding	IDA Inferred from Direct Assay more info	PubMed
enables histone binding	IBA Inferred from Biological aspect of Ancestor more info
enables nucleosome binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in follicle cell of egg chamber development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nucleobase-containing compound metabolic process	IEA Inferred from Electronic Annotation more info
involved_in nucleosome organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of antibacterial peptide biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of transcription elongation by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in transcription by RNA polymerase II	IEP Inferred from Expression Pattern more info	PubMed
involved_in transcription elongation by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in transcription elongation-coupled chromatin remodeling	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in chromosome, centromeric region	IDA Inferred from Direct Assay more info	PubMed
located_in euchromatin	IDA Inferred from Direct Assay more info	PubMed
located_in histone locus body	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome interband	IDA Inferred from Direct Assay more info	PubMed
located_in polytene chromosome puff	IDA Inferred from Direct Assay more info	PubMed
part_of transcription elongation factor complex	IBA Inferred from Biological aspect of Ancestor more info
part_of transcription elongation factor complex	IPI Inferred from Physical Interaction more info	PubMed

General protein information

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Preferred Names: Spt6

Names: CG12225-PA; CG12225-PB; Spt6-PA; Spt6-PB

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

NC_004354.4 Reference assembly

Range

6267797..6274984

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_143705.3 → NP_651962.2 Spt6, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_651962.2

Status: REVIEWED

UniProtKB/Swiss-Prot

Q960J2, Q9U8B5, Q9U8B6, Q9W420

UniProtKB/TrEMBL

B6IDH0, N0D8I3

Related

FBpp0070861

Conserved Domains (8) summary

cd09918
Location:1336 → 1420

SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6

cd09928
Location:1429 → 1524

SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6

pfam00575
Location:1220 → 1281

S1; S1 RNA binding domain

pfam14633
Location:1309 → 1523

SH2_2; SH2 domain

pfam14641
Location:308 → 411

HTH_44; Helix-turn-helix DNA-binding domain of SPT6

pfam14878
Location:1057 → 1159

DLD; Death-like domain of SPT6

cl21482
Location:781 → 935

RuvC_resolvase; Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes ...

cl22429
Location:939 → 1042

HHH_5; Helix-hairpin-helix domain
NM_001298007.1 → NP_001284936.1 Spt6, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001284936.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q960J2, Q9U8B5, Q9U8B6, Q9W420

UniProtKB/TrEMBL

B6IDH0, N0D8I3

Conserved Domains (8) summary

cd09918
Location:1336 → 1420

SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6

cd09928
Location:1429 → 1524

SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6

pfam00575
Location:1220 → 1281

S1; S1 RNA binding domain

pfam14633
Location:1309 → 1523

SH2_2; SH2 domain

pfam14641
Location:308 → 411

HTH_44; Helix-turn-helix DNA-binding domain of SPT6

pfam14878
Location:1057 → 1159

DLD; Death-like domain of SPT6

cl21482
Location:781 → 935

RuvC_resolvase; Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes ...

cl22429
Location:939 → 1042

HHH_5; Helix-hairpin-helix domain