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sympk symplekin [ Danio rerio (zebrafish) ]

Gene ID: 570858, updated on 2-Nov-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, Nov 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 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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