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    Transcription elongation factor Spt5 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 817982, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Transcription elongation factor Spt5
    Primary source
    TAIR:AT2G34210
    Locus tag
    AT2G34210
    See related
    Araport:AT2G34210
    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
    F13P17.5; F13P17_5; SPT5-1
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    19
    Sequence:
    Chromosome: 2; NC_003071.7 (14445938..14450522)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ubiquitin carboxyl-terminal hydrolase-like protein, putative (DUF627 and DUF629) Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Phosphorylation of SPT5 by CDKD;2 Is Required for VIP5 Recruitment and Normal Flowering in Arabidopsis thaliana. Lu C, et al. Plant Cell, 2017 Feb. PMID 28188267, Free PMC Article
    2. RNA-directed DNA methylation requires an AGO4-interacting member of the SPT5 elongation factor family. Bies-Etheve N, et al. EMBO Rep, 2009 Jun. PMID 19343051, Free PMC Article
    3. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. The phosphorylation of SPT5 by CDKD;2 enables it to recruit VIP5 to regulate chromatin and transcription in Arabidopsis.
      Title: Phosphorylation of SPT5 by CDKD;2 Is Required for VIP5 Recruitment and Normal Flowering in Arabidopsis thaliana.
    2. SPT5-like protein emerged in plants as a facultative RNA polymerase elongation factor.[SPT5]
      Title: RNA-directed DNA methylation requires an AGO4-interacting member of the SPT5 elongation factor family.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables structural constituent of ribosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    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-coupled chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in translation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  
    located_in ribosome IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Transcription elongation factor Spt5
    NP_180968.2
    • Transcription elongation factor Spt5; FUNCTIONS IN: transcription elongation regulator activity, structural constituent of ribosome, transcription initiation factor activity; INVOLVED IN: regulation of transcription from RNA polymerase II promoter, translation, positive regulation of RNA elongation from RNA polymerase II promoter; LOCATED IN: ribosome, intracellular; EXPRESSED IN: sperm cell; CONTAINS InterPro DOMAIN/s: Translation protein SH3-like (InterPro:IPR008991), Transcription antitermination protein, NusG, N-terminal (InterPro:IPR006645), Transcription elongation factor Spt5 (InterPro:IPR017071), KOW (InterPro:IPR005824), Ribosomal protein L24/L26, conserved site (InterPro:IPR005825), Transcription elongation factor Spt5, NGN domain (InterPro:IPR005100); BEST Arabidopsis thaliana protein match is: global transcription factor group A2 (TAIR:AT4G08350.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (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_003071.7 Reference assembly

      Range
      14445938..14450522
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_128972.2 → NP_180968.2  Transcription elongation factor Spt5 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_180968.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      F4IGX3, O80770
      UniProtKB/TrEMBL
      A0A178VUM4
      Conserved Domains (10) summary
      TIGR00405
      Location:174 → 318
      KOW_elon_Spt5; transcription elongation factor Spt5
      cd09888
      Location:170 → 253
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:318 → 877
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:264 → 301
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:413 → 463
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:464 → 514
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:598 → 634
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06086
      Location:930 → 987
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:786 → 861
      Caudal_act; Caudal like protein activation region
      cl00354
      Location:682 → 729
      KOW; KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese)

    2. NM_001336495.1 → NP_001324132.1  Transcription elongation factor Spt5 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VUM4, A0A1P8AZ96, A0A654EYP6
      Conserved Domains (5) summary
      cd09888
      Location:158 → 241
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:306 → 865
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:252 → 289
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06086
      Location:918 → 975
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam11942
      Location:62 → 152
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O80770.2

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