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    sympk symplekin [ Danio rerio (zebrafish) ]

    Gene ID: 570858, updated on 9-Dec-2024

    Summary

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    Official Symbol
    sympkprovided by ZNC
    Official Full Name
    symplekinprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-060526-361
    See related
    Ensembl:ENSDARG00000059553 AllianceGenome:ZFIN:ZDB-GENE-060526-361
    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:dkeyp-117b8.1
    Summary
    Predicted to act upstream of or within mRNA processing. Predicted to be located in nucleus. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human SYMPK (symplekin scaffold protein). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See sympk in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    27
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (61862199..61890569)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (61199456..61227832)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein U-like 1 like Neighboring gene interferon-induced protein with tetratricopeptide repeats 5 Neighboring gene radial spoke head component 4A Neighboring gene N-ethylmaleimide-sensitive factor attachment protein, alpha a Neighboring gene zinc finger BED-type containing 4-like 2

    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. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    2. 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
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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

    Process Evidence Code Pubs
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of mRNA cleavage and polyadenylation specificity factor complex 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
    symplekin

    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_007116.7 Reference GRCz11 Primary Assembly

      Range
      61862199..61890569
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_694383.9 → XP_699475.5  symplekin isoform X1

      UniProtKB/TrEMBL
      A0A0R4I9D6, A0A8N7UVD6
      Related
      ENSDARP00000077314.5, ENSDART00000082879.7
      Conserved Domains (4) summary
      pfam04592
      Location:1094 → 1161
      SelP_N; Selenoprotein P, N terminal region
      pfam11935
      Location:116 → 332
      DUF3453; Domain of unknown function (DUF3453)
      pfam12295
      Location:885 → 1066
      Symplekin_C; Symplekin tight junction protein C terminal
      cl21453
      Location:831 → 880
      PKc_like; Protein Kinases, catalytic domain

    2. XM_005165573.5 → XP_005165630.1  symplekin isoform X2

      UniProtKB/TrEMBL
      A0A8M2BCU7, A2CET0
      Related
      ENSDARP00000113544.2, ENSDART00000132452.3
      Conserved Domains (4) summary
      pfam04592
      Location:1094 → 1161
      SelP_N; Selenoprotein P, N terminal region
      pfam11935
      Location:116 → 332
      DUF3453; Domain of unknown function (DUF3453)
      pfam12295
      Location:885 → 1066
      Symplekin_C; Symplekin tight junction protein C terminal
      cl21453
      Location:831 → 880
      PKc_like; Protein Kinases, catalytic domain
    Nucleotide Protein Strain
    Heading Accession and Version

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