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    Supt6h SPT6 homolog, histone chaperone and transcription elongation factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303281, updated on 2-Nov-2024

    Summary

    Official Symbol
    Supt6hprovided by RGD
    Official Full Name
    SPT6 homolog, histone chaperone and transcription elongation factorprovided by RGD
    Primary source
    RGD:1309290
    See related
    EnsemblRapid:ENSRNOG00000012240 AllianceGenome:RGD:1309290
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable histone binding activity and nucleosome binding activity. Predicted to be involved in several processes, including chromatin remodeling; regulation of mRNA export from nucleus; and regulation of nucleobase-containing compound metabolic process. Predicted to act upstream of or within blastocyst formation. Predicted to be part of transcription elongation factor complex. Orthologous to human SUPT6H (SPT6 homolog, histone chaperone and transcription elongation factor). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 237.3), Spleen (RPKM 159.6) and 9 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Supt6h in Genome Data Viewer
    Location:
    10q25
    Exon count:
    41
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (63601990..63638851, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (63103920..63140780, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (65470470..65507581, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene RAB34, member RAS oncogene family Neighboring gene protein interacting with cyclin A1 Neighboring gene stromal cell derived factor 2 Neighboring gene bridge-like lipid transfer protein family member 2 Neighboring gene uncharacterized LOC120095269 Neighboring gene U6 spliceosomal RNA Neighboring gene ribosomal protein L37A, pseudogene 13 Neighboring gene ribosomal protein S6 kinase related

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    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 nucleosome binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    Component Evidence Code Pubs
    part_of transcription elongation factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    transcription elongation factor SPT6

    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_001191820.2NP_001178749.1  transcription elongation factor SPT6

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6AFN6
      Related
      ENSRNOP00000016759.6, ENSRNOT00000016759.8
      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_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      63601990..63638851 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039085998.2XP_038941926.1  transcription elongation factor SPT6 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AFN6
      Conserved Domains (2) summary
      COG2183
      Location:3701351
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      pfam14633
      Location:13061510
      SH2_2; SH2 domain
    2. XM_008768006.4XP_008766228.1  transcription elongation factor SPT6 isoform X1

      See identical proteins and their annotated locations for XP_008766228.1

      UniProtKB/TrEMBL
      A0A0G2K0J0, A0A8I6AFN6
      Conserved Domains (10) summary
      smart00316
      Location:12261281
      S1; Ribosomal protein S1-like RNA-binding domain
      cd09918
      Location:13301414
      SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
      cd09928
      Location:14231514
      SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
      COG2183
      Location:3711352
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      pfam14639
      Location:774930
      YqgF; Holliday-junction resolvase-like of SPT6
      pfam09371
      Location:564622
      Tex_N; Tex-like protein N-terminal domain
      pfam14633
      Location:13031513
      SH2_2; SH2 domain
      pfam14635
      Location:9341037
      HHH_7; Helix-hairpin-helix motif
      pfam14641
      Location:347421
      HTH_44; Helix-turn-helix DNA-binding domain of SPT6
      pfam14878
      Location:10521156
      DLD; Death-like domain of SPT6
    3. XM_008768008.4XP_008766230.1  transcription elongation factor SPT6 isoform X3

      UniProtKB/TrEMBL
      A0A8I6AFN6, F1LR36
      Conserved Domains (10) summary
      smart00316
      Location:11041159
      S1; Ribosomal protein S1-like RNA-binding domain
      cd09918
      Location:12081292
      SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
      cd09928
      Location:13011392
      SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
      COG2183
      Location:2491230
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      pfam14639
      Location:652808
      YqgF; Holliday-junction resolvase-like of SPT6
      pfam09371
      Location:442500
      Tex_N; Tex-like protein N-terminal domain
      pfam14633
      Location:11811391
      SH2_2; SH2 domain
      pfam14635
      Location:812915
      HHH_7; Helix-hairpin-helix motif
      pfam14641
      Location:225299
      HTH_44; Helix-turn-helix DNA-binding domain of SPT6
      pfam14878
      Location:9301034
      DLD; Death-like domain of SPT6
    4. XM_063269048.1XP_063125118.1  transcription elongation factor SPT6 isoform X2

    5. XM_008768007.4XP_008766229.1  transcription elongation factor SPT6 isoform X1

      See identical proteins and their annotated locations for XP_008766229.1

      UniProtKB/TrEMBL
      A0A0G2K0J0, A0A8I6AFN6
      Related
      ENSRNOP00000071467.1, ENSRNOT00000089615.3
      Conserved Domains (10) summary
      smart00316
      Location:12261281
      S1; Ribosomal protein S1-like RNA-binding domain
      cd09918
      Location:13301414
      SH2_Nterm_SPT6_like; N-terminal Src homology 2 (SH2) domain found in Spt6
      cd09928
      Location:14231514
      SH2_Cterm_SPT6_like; C-terminal Src homology 2 (SH2) domain found in Spt6
      COG2183
      Location:3711352
      Tex; Transcriptional accessory protein Tex/SPT6 [Transcription]
      pfam14639
      Location:774930
      YqgF; Holliday-junction resolvase-like of SPT6
      pfam09371
      Location:564622
      Tex_N; Tex-like protein N-terminal domain
      pfam14633
      Location:13031513
      SH2_2; SH2 domain
      pfam14635
      Location:9341037
      HHH_7; Helix-hairpin-helix motif
      pfam14641
      Location:347421
      HTH_44; Helix-turn-helix DNA-binding domain of SPT6
      pfam14878
      Location:10521156
      DLD; Death-like domain of SPT6
    6. XM_063269049.1XP_063125119.1  transcription elongation factor SPT6 isoform X3

      UniProtKB/TrEMBL
      F1LR36
    7. XM_063269047.1XP_063125117.1  transcription elongation factor SPT6 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K0J0
    8. XM_063269045.1XP_063125115.1  transcription elongation factor SPT6 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K0J0
    9. XM_063269046.1XP_063125116.1  transcription elongation factor SPT6 isoform X1

      UniProtKB/TrEMBL
      A0A0G2K0J0

    RNA

    1. XR_005489830.2 RNA Sequence