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supt20 SPT20 homolog, SAGA complex component [ Danio rerio (zebrafish) ]

Gene ID: 568453, updated on 9-Dec-2024

Summary

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Official Symbol
supt20provided by ZNC
Official Full Name
SPT20 homolog, SAGA complex componentprovided by ZNC
Primary source
ZFIN:ZDB-GENE-091204-264
See related
Ensembl:ENSDARG00000078658 AllianceGenome:ZFIN:ZDB-GENE-091204-264
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
si:ch211-106i3.6
Summary
Predicted to enable transcription coregulator activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be part of SAGA complex. Orthologous to several human genes including SUPT20H (SPT20 homolog, SAGA complex component). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs
human mouse all
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Genomic context

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See supt20 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 10 NC_007121.7 (35011403..35052210, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 10 NC_007121.6 (35067582..35108354, complement)

Chromosome 10 - NC_007121.7Genomic Context describing neighboring genes Neighboring gene regulatory factor X-associated protein Neighboring gene SMAD family member 9 Neighboring gene ALG5 dolichyl-phosphate beta-glucosyltransferase Neighboring gene exosome component 8 Neighboring gene zgc:110006 Neighboring gene receptor-interacting serine-threonine kinase 4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables transcription coregulator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription coregulator activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of SAGA complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of SAGA complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
transcription factor SPT20 homolog
Names
fam48a
suppressor of Ty 20 homolog

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007121.7 Reference GRCz11 Primary Assembly

    Range
    35011403..35052210 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068223988.1 → XP_068080089.1  transcription factor SPT20 homolog isoform X7

  2. XM_068223987.1 → XP_068080088.1  transcription factor SPT20 homolog isoform X6

  3. XM_005172733.4 → XP_005172790.1  transcription factor SPT20 homolog isoform X3

    UniProtKB/TrEMBL
    A0A8M2BKJ0
    Conserved Domains (1) summary
    pfam12090
    Location:75 → 224
    Spt20; Spt20 family

  4. XM_068223986.1 → XP_068080087.1  transcription factor SPT20 homolog isoform X5

  5. XM_005172732.4 → XP_005172789.1  transcription factor SPT20 homolog isoform X2

    UniProtKB/TrEMBL
    A0A8M2BJX2
    Conserved Domains (1) summary
    pfam12090
    Location:75 → 224
    Spt20; Spt20 family

  6. XM_005172734.4 → XP_005172791.1  transcription factor SPT20 homolog isoform X4

    UniProtKB/TrEMBL
    A0A8M2BJZ0
    Conserved Domains (1) summary
    pfam12090
    Location:75 → 224
    Spt20; Spt20 family

  7. XM_001921561.7 → XP_001921596.4  transcription factor SPT20 homolog isoform X1

    UniProtKB/TrEMBL
    A0A8M1QV20, F1QKI6
    Related
    ENSDARP00000098157.3, ENSDART00000108670.4
    Conserved Domains (1) summary
    pfam12090
    Location:75 → 224
    Spt20; Spt20 family
Nucleotide Protein
Heading Accession and Version

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