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    Supt6 SPT6, histone chaperone and transcription elongation factor [ Mus musculus (house mouse) ]

    Gene ID: 20926, updated on 9-Dec-2024

    Summary

    Official Symbol
    Supt6provided by MGI
    Official Full Name
    SPT6, histone chaperone and transcription elongation factorprovided by MGI
    Primary source
    MGI:MGI:107726
    See related
    Ensembl:ENSMUSG00000002052 AllianceGenome:MGI:107726
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    SPT6; Supt6h; mKIAA0162; 5131400N11Rik
    Summary
    Predicted to enable histone binding activity and nucleosome binding activity. Involved in several processes, including regulation of mRNA export from nucleus; regulation of nucleobase-containing compound metabolic process; and transcription elongation-coupled chromatin remodeling. Acts upstream of or within blastocyst formation. Predicted to be located in nucleus. Predicted to be part of transcription elongation factor complex. Is expressed in several structures, including brain; early conceptus; genitourinary system; retina; and spleen. Orthologous to human SUPT6H (SPT6 homolog, histone chaperone and transcription elongation factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in cerebellum adult (RPKM 12.2), frontal lobe adult (RPKM 11.8) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Supt6 in Genome Data Viewer
    Location:
    11 B5; 11 46.74 cM
    Exon count:
    38
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (78097575..78136798, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (78206749..78245972, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene Rab34 Hedgehog-responsive enhancer Neighboring gene RAB34, member RAS oncogene family Neighboring gene protein interacting with cyclin A1 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:78029402-78029555 Neighboring gene STARR-seq mESC enhancer starr_30092 Neighboring gene small nuclear ribonucleoprotein N pseudogene Neighboring gene stromal cell derived factor 2 Neighboring gene bridge-like lipid transfer protein family member 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables histone binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables nucleosome binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    part_of transcription elongation factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    transcription elongation factor SPT6
    Names
    suppressor of Ty 6 homolog

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_009297.2NP_033323.2  transcription elongation factor SPT6

      See identical proteins and their annotated locations for NP_033323.2

      Status: VALIDATED

      Source sequence(s)
      AK052651, AK136094, AK158846, BC072657
      Consensus CDS
      CCDS25095.1
      UniProtKB/Swiss-Prot
      Q5SYM0, Q62383, Q6GQS3, Q6ZQI0, Q8BQY6
      Related
      ENSMUSP00000002121.5, ENSMUST00000002121.5
      Conserved Domains (10) summary
      smart00316
      Location:12271282
      S1; Ribosomal protein S1-like RNA-binding domain
      cd09918
      Location:13311415
      SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
      cd09928
      Location:14241515
      SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
      COG2183
      Location:3721353
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      pfam14639
      Location:775931
      YqgF; Holliday-junction resolvase-like of SPT6
      pfam09371
      Location:565623
      Tex_N; Tex-like protein N-terminal domain
      pfam14633
      Location:13041514
      SH2_2; SH2 domain
      pfam14635
      Location:9351038
      HHH_7; Helix-hairpin-helix motif
      pfam14641
      Location:348422
      HTH_44; Helix-turn-helix DNA-binding domain of SPT6
      pfam14878
      Location:10531157
      DLD; Death-like domain of SPT6

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      78097575..78136798 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006532743.4XP_006532806.1  transcription elongation factor SPT6 isoform X1

      Conserved Domains (2) summary
      COG2183
      Location:2491230
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      pfam14633
      Location:11811391
      SH2_2; SH2 domain

    RNA

    1. XR_001779939.2 RNA Sequence