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    sde2 SDE2 telomere maintenance homolog (S. pombe) [ Danio rerio (zebrafish) ]

    Gene ID: 550448, updated on 12-Sep-2024

    Summary

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    Official Symbol
    sde2provided by ZNC
    Official Full Name
    SDE2 telomere maintenance homolog (S. pombe)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-050417-270
    See related
    Ensembl:ENSDARG00000024124 AllianceGenome:ZFIN:ZDB-GENE-050417-270
    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:fb55e02; wu:fi34c02; zgc:112095
    Summary
    Predicted to enable DNA binding activity. Predicted to act upstream of or within DNA replication and cell division. Predicted to be active in nucleus. Orthologous to human SDE2 (SDE2 telomere maintenance homolog). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See sde2 in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (26276973..26289520, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (26257076..26269652, complement)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene WD repeat domain containing 83 Neighboring gene uncharacterized LOC137488942 Neighboring gene mitochondrial ribosomal protein S28 Neighboring gene calpain 1, (mu/I) large subunit b

    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. 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
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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 DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables snoRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA replication IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within RNA splicing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in endonucleolytic cleavage of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in mRNA cis splicing, via spliceosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    splicing regulator SDE2
    Names
    UPF0667 protein C1orf55 homolog
    protein SDE2 homolog
    replication stress response regulator SDE2

    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_001017752.2 → NP_001017752.2  splicing regulator SDE2

      See identical proteins and their annotated locations for NP_001017752.2

      Status: PROVISIONAL

      Source sequence(s)
      BC054640
      UniProtKB/Swiss-Prot
      Q7T293
      Related
      ENSDARP00000043773.5, ENSDART00000043774.6
      Conserved Domains (2) summary
      pfam13297
      Location:401 → 460
      Telomere_Sde2_2; Telomere stability C-terminal
      cl00155
      Location:14 → 140
      UBQ; Ubiquitin-like proteins

    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_007133.7 Reference GRCz11 Primary Assembly

      Range
      26276973..26289520 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009296385.4 → XP_009294660.1  splicing regulator SDE2 isoform X1

      UniProtKB/TrEMBL
      A0A8M3AUU4
      Conserved Domains (2) summary
      pfam13297
      Location:397 → 456
      Telomere_Sde2_2; Telomere stability C-terminal
      cl00155
      Location:14 → 140
      UBQ; Ubiquitin-like proteins

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395112.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      232135..244008 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q7T293.2 GenPept UniProtKB/Swiss-Prot:Q7T293

    Gene LinkOut

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