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    si:ch211-212k18.5 si:ch211-212k18.5 [ Danio rerio (zebrafish) ]

    Gene ID: 562900, updated on 2-Nov-2024

    Summary

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    Official Symbol
    si:ch211-212k18.5provided by ZNC
    Official Full Name
    si:ch211-212k18.5provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-379
    See related
    Ensembl:ENSDARG00000103316 AllianceGenome:ZFIN:ZDB-GENE-030131-379
    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
    fb25b09; wu:fb25b09
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in coloboma. Orthologous to human SALL2 (spalt like transcription factor 2). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See si:ch211-212k18.5 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (19552370..19558842)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (19300359..19306874)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene tetratricopeptide repeat domain 5 Neighboring gene cyclin B1 interacting protein 1 Neighboring gene solute carrier family 7 member 7 Neighboring gene OXA1L mitochondrial inner membrane protein

    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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    2. 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 DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding 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
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sal-like protein 2

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      19552370..19558842
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021477752.2 → XP_021333427.1  sal-like protein 2

      UniProtKB/TrEMBL
      A0A0R4I9L7, A0A8N7TB39
      Related
      ENSDARP00000130030.1, ENSDART00000169060.2
      Conserved Domains (3) summary
      sd00017
      Location:703 → 723
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:378 → 403
      zf-H2C2_2; Zinc-finger double domain
      cl27975
      Location:58 → 268
      EBV-NA3; Epstein-Barr virus nuclear antigen 3 (EBNA-3)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394683.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      274577..281049
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_686268.10 → XP_691360.5  sal-like protein 2

      UniProtKB/TrEMBL
      A0A0R4I9L7, A0A8N7TB39
      Conserved Domains (3) summary
      sd00017
      Location:703 → 723
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:378 → 403
      zf-H2C2_2; Zinc-finger double domain
      cl27975
      Location:58 → 268
      EBV-NA3; Epstein-Barr virus nuclear antigen 3 (EBNA-3)
    Nucleotide Protein
    Heading Accession and Version

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