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    spty2d1 SPT2 chromatin protein domain containing 1 [ Danio rerio (zebrafish) ]

    Gene ID: 337191, updated on 18-Sep-2024

    Summary

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    Official Symbol
    spty2d1provided by ZNC
    Official Full Name
    SPT2 chromatin protein domain containing 1provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050522-212
    See related
    Ensembl:ENSDARG00000033889 AllianceGenome:ZFIN:ZDB-GENE-050522-212
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    wu:fb01d08; zgc:111826
    Summary
    Predicted to enable DNA binding activity; RNA polymerase I core binding activity; and histone binding activity. Predicted to be involved in nucleosome organization; regulation of chromatin assembly; and regulation of transcription, DNA-templated. Predicted to be located in nucleus. Predicted to be active in nucleolus. Is expressed in axial mesoderm; hatching gland; notochord; and polster. Orthologous to human SPTY2D1 (SPT2 chromatin protein domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See spty2d1 in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (24237088..24248019, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (24139680..24150472, complement)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene si:dkey-11e23.9 Neighboring gene UEV and lactate/malate dehyrogenase domains Neighboring gene transmembrane protein 86A Neighboring gene beta-1,4-N-acetyl-galactosaminyl transferase 4a Neighboring gene uncharacterized LOC137489360

    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 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. Comparison between Timelines of Transcriptional Regulation in Mammals, Birds, and Teleost Fish Somitogenesis. Fongang B, et al. PLoS One, 2016. PMID 27192554, Free PMC Article
    2. ERK1 and ERK2 MAPK are key regulators of distinct gene sets in zebrafish embryogenesis. Krens SF, et al. BMC Genomics, 2008 Apr 28. PMID 18442396, Free PMC Article
    3. Knockdown screening of chromatin binding and regulatory proteins in zebrafish identified Suz12b as a regulator of tfpia and an antithrombotic drug target. Raman R, et al. Sci Rep, 2021 Jul 27. PMID 34315984, Free PMC Article
    4. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article
    5. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables RNA polymerase I core binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables histone binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables histone chaperone activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in heterochromatin formation ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in nucleosome assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nucleosome assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in transcription by RNA polymerase I IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein SPT2 homolog
    Names
    SPT2 domain-containing protein 1

    NCBI Reference Sequences (RefSeq)

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    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_001159971.1 → NP_001153443.1  protein SPT2 homolog

      Status: PROVISIONAL

      Source sequence(s)
      BX005383, CT573392
      UniProtKB/Swiss-Prot
      Q502T7, Q6DGN6
      UniProtKB/TrEMBL
      A0A8M6YWI0, F1QNL9
      Related
      ENSDARP00000068017.2, ENSDART00000073527.5
      Conserved Domains (1) summary
      smart00784
      Location:525 → 629
      SPT2; SPT2 chromatin protein

    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_007136.7 Reference GRCz11 Primary Assembly

      Range
      24237088..24248019 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005170676.5 → XP_005170733.1  protein SPT2 homolog isoform X1

      UniProtKB/Swiss-Prot
      Q502T7, Q6DGN6
      UniProtKB/TrEMBL
      A0A8M2BHY4, F1R3H5
      Related
      ENSDARP00000046348.7, ENSDART00000046349.8
      Conserved Domains (1) summary
      pfam08243
      Location:531 → 631
      SPT2; SPT2 chromatin protein

    2. XM_017354057.3 → XP_017209546.1  protein SPT2 homolog isoform X2

      UniProtKB/Swiss-Prot
      Q502T7, Q6DGN6
      UniProtKB/TrEMBL
      A0A8M6YWI0, F1QNL9
      Conserved Domains (1) summary
      smart00784
      Location:525 → 629
      SPT2; SPT2 chromatin protein

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395205.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      718670..719295 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395206.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      630..9009 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6DGN6.2 GenPept UniProtKB/Swiss-Prot:Q6DGN6

    Gene LinkOut

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

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