U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

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

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help
    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    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

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
    Molecular Biology Databases
    Research Materials
    Tools