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shld2 shieldin complex subunit 2 [ Danio rerio (zebrafish) ]

Gene ID: 100149820, updated on 2-Nov-2024

Summary

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Official Symbol
shld2provided by ZNC
Official Full Name
shieldin complex subunit 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-090313-30
See related
Ensembl:ENSDARG00000038686 AllianceGenome:ZFIN:ZDB-GENE-090313-30
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
fam35a; si:ch211-134m17.9
Summary
Predicted to be involved in regulation of double-strand break repair via homologous recombination. Predicted to be active in nucleus and site of double-strand break. Orthologous to human SHLD2 (shieldin complex subunit 2). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
human mouse all
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Genomic context

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See shld2 in Genome Data Viewer
Location:
chromosome: 13
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (22698215..22715103)
105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (22567765..22584652)

Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene synuclein, gamma a Neighboring gene zgc:193505 Neighboring gene glutamate dehydrogenase 1a Neighboring gene nuclear factor of kappa light polypeptide gene enhancer in B-cells 2 (p49/p100) Neighboring gene pleckstrin and Sec7 domain containing a Neighboring gene uncharacterized LOC137487396 Neighboring gene uncharacterized LOC100001713

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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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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Homology

Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in regulation of double-strand break repair via homologous recombination 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
  
is_active_in site of double-strand break IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
shieldin complex subunit 2
Names
family with sequence similarity 35, member A

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_001145633.1 → NP_001139105.1  shieldin complex subunit 2

    Status: PROVISIONAL

    Source sequence(s)
    BX005174
    UniProtKB/TrEMBL
    A0A8M1NTG0, B8A4B1
    Related
    ENSDARP00000117245.1, ENSDART00000137467.3
    Conserved Domains (1) summary
    pfam15793
    Location:598 → 780
    FAM35_C; Protein family FAM35, C-terminal

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_007124.7 Reference GRCz11 Primary Assembly

    Range
    22698215..22715103
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005156727.5 → XP_005156784.1  shieldin complex subunit 2 isoform X1

    UniProtKB/TrEMBL
    A0A8M2B2T0
    Conserved Domains (1) summary
    pfam15793
    Location:598 → 773
    FAM35_C; Protein family FAM35, C-terminal

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394884.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    141669..158556
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

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