spt-5 Transcription elongation factor SPT5 [Caenorhabditis elegans] - Gene

Summary

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Gene symbol: spt-5
Gene description: Transcription elongation factor SPT5
Primary source: WormBase:WBGene00005015
Locus tag: CELE_K08E4.1
See related: AllianceGenome:WB:WBGene00005015
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Predicted to enable mRNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II and transcription elongation from RNA polymerase II promoter. Located in transcriptionally active chromatin. Is expressed in several structures, including head; intestine; pharynx; and tail. Orthologous to human SUPT5H (SPT5 homolog, DSIF elongation factor subunit). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:: chromosome: IV

Exon count:: 8

Sequence:: Chromosome: IV; NC_003282.8 (12051491..12055746)

Chromosome IV - NC_003282.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003282.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

transcription initiating events are influenced by the phosphorylation status of SPT-5, particularly at DAF-16 target genes where transcriptional initiation appears rate limiting, rendering PP4(SMK-1) crucial for many of DAF-16's physiological roles.
Title: DAF-16/FOXO requires Protein Phosphatase 4 to initiate transcription of stress resistance and longevity promoting genes.

Submit: New GeneRIF Correction

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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Markers

K08E4.1 (e-PCR)
- UniSTS:321571

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables mRNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in DNA-templated transcription elongation	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription elongation	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
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
part_of DSIF complex	IBA Inferred from Biological aspect of Ancestor more info
part_of DSIF complex	ISS Inferred from Sequence or Structural Similarity more info
part_of euchromatin	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Transcription elongation factor SPT5

NP_502283.1

Confirmed by transcript evidence

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_003282.8 Reference assembly

Range

12051491..12055746

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_069882.6 → NP_502283.1 Transcription elongation factor SPT5 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_502283.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q21338, Q22440

Conserved Domains (10) summary

cd09888
Location:184 → 269

NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)

COG5164
Location:337 → 1032

SPT5; Transcription elongation factor [Transcription]

cd06081
Location:280 → 317

KOW_Spt5_1; KOW domain of Spt5, repeat 1

cd06082
Location:421 → 471

KOW_Spt5_2; KOW domain of Spt5, repeat 2

cd06083
Location:472 → 522

KOW_Spt5_3; KOW domain of Spt5, repeat 3

cd06084
Location:599 → 648

KOW_Spt5_4; KOW domain of Spt5, repeat 4

cd06085
Location:726 → 778

KOW_Spt5_5; KOW domain of Spt5, repeat 5

cd06086
Location:1147 → 1205

KOW_Spt5_6; KOW domain of Spt5, repeat 6

pfam11942
Location:96 → 177

Spt5_N; Spt5 transcription elongation factor, acidic N-terminal

pfam12815
Location:850 → 924

CTD; Spt5 C-terminal nonapeptide repeat binding Spt4