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Transcription elongation factor Spt6 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 842626, updated on 18-Sep-2024

Summary

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Official Full Name
Transcription elongation factor Spt6
Primary source
TAIR:AT1G63210
Locus tag
AT1G63210
See related
Araport:AT1G63210
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as
F16M19.22; F16M19_22
Summary
SPT6L encodes a putative WG/GW-repeat protein involved in the regulation of apical#Aeibasal polarity of embryo
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Genomic context

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Location:
chromosome: 1
Exon count:
2
Sequence:
Chromosome: 1; NC_003070.9 (23443688..23447354)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Cystatin/monellin superfamily protein Neighboring gene Cystatin/monellin superfamily protein Neighboring gene Calcium-dependent lipid-binding (CaLB domain) family protein Neighboring gene Tetratricopeptide repeat (TPR)-like superfamily protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. SPT6L encoding a putative WG/GW-repeat protein regulates apical-basal polarity of embryo in Arabidopsis. Gu XL, et al. Mol Plant, 2012 Jan. PMID 21948524
  2. A proteomic strategy for global analysis of plant protein complexes. Aryal UK, et al. Plant Cell, 2014 Oct. PMID 25293756, Free PMC Article
  3. A Pan-plant Protein Complex Map Reveals Deep Conservation and Novel Assemblies. McWhite CD, et al. Cell, 2020 Apr 16. PMID 32191846, Free PMC Article
  4. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within embryo development ending in seed dormancy IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in transcription elongation-coupled chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytosol HDA PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
Transcription elongation factor Spt6
NP_176510.1
  • Transcription elongation factor Spt6; FUNCTIONS IN: transcription elongation regulator activity, hydrolase activity, acting on ester bonds, RNA binding; INVOLVED IN: regulation of transcription from RNA polymerase II promoter, nucleobase, nucleoside, nucleotide and nucleic acid metabolic process; EXPRESSED IN: sperm cell, flower, cultured cell; EXPRESSED DURING: 4 anthesis; CONTAINS InterPro DOMAIN/s: Resolvase, RNase H-like fold (InterPro:IPR006641), Nucleic acid-binding, OB-fold-like (InterPro:IPR016027), SH2 motif (InterPro:IPR000980), Ribosomal protein S1, RNA-binding domain (InterPro:IPR003029), Transcription elongation factor Spt6 (InterPro:IPR017072); BEST Arabidopsis thaliana protein match is: global transcription factor group B1 (TAIR:AT1G65440.2); Has 3998 Blast hits to 3944 proteins in 1964 species: Archae - 20; Bacteria - 3376; Metazoa - 203; Fungi - 157; Plants - 65; Viruses - 0; Other Eukaryotes - 177 (source: NCBI BLink).

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

  1. NC_003070.9 Reference assembly

    Range
    23443688..23447354
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_105000.1 → NP_176510.1  Transcription elongation factor Spt6 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_176510.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A7G2E2P5
    Conserved Domains (10) summary
    smart00732
    Location:506 → 624
    YqgFc; Likely ribonuclease with RNase H fold
    smart00316
    Location:891 → 963
    S1; Ribosomal protein S1-like RNA-binding domain
    cd09918
    Location:1009 → 1097
    SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
    cd09928
    Location:1108 → 1194
    SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
    COG2183
    Location:115 → 972
    Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
    pfam09371
    Location:135 → 360
    Tex_N; Tex-like protein N-terminal domain
    pfam14633
    Location:1001 → 1193
    SH2_2; SH2 domain
    pfam14641
    Location:90 → 202
    HTH_44; Helix-turn-helix DNA-binding domain of SPT6
    pfam14878
    Location:782 → 885
    DLD; Death-like domain of SPT6
    cl22429
    Location:666 → 766
    HHH_5; Helix-hairpin-helix domain
Nucleotide Protein
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