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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

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