U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Shld2 shieldin complex subunit 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364514, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Shld2provided by RGD
    Official Full Name
    shieldin complex subunit 2provided by RGD
    Primary source
    RGD:1565067
    See related
    EnsemblRapid:ENSRNOG00000059057 AllianceGenome:RGD:1565067
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Fam35a; RGD1310009
    Summary
    Predicted to be involved in negative regulation of double-strand break repair via homologous recombination; positive regulation of double-strand break repair via nonhomologous end joining; and positive regulation of isotype switching. Predicted to be located in actin cytoskeleton; chromosome; and nucleoplasm. 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, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 169.3), Kidney (RPKM 79.0) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Shld2 in Genome Data Viewer
    Location:
    16p15
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (9554921..9646186, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (9544940..9640323, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (10570307..10661528, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene G protein regulated inducer of neurite outgrowth 2 Neighboring gene synaptotagmin 15 Neighboring gene ZW10 interacting kinetochore protein, pseudogene 1 Neighboring gene small nucleolar RNA SNORA15 Neighboring gene glutamate dehydrogenase 1 Neighboring gene family with sequence similarity 25, member A

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. FAM35A associates with REV7 and modulates DNA damage responses of normal and BRCA1-defective cells. Tomida J, et al. EMBO J, 2018 Jun 15. PMID 29789392, Free PMC Article
    2. DNA Repair Network Analysis Reveals Shieldin as a Key Regulator of NHEJ and PARP Inhibitor Sensitivity. Gupta R, et al. Cell, 2018 May 3. PMID 29656893, Free PMC Article
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in negative regulation of double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of double-strand break repair via nonhomologous end joining ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of isotype switching ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of double-strand break repair via homologous recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in actin cytoskeleton ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in site of double-strand break IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in site of double-strand break ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    shieldin complex subunit 2
    Names
    family with sequence similarity 35, member A

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001025028.2 → NP_001020199.2  shieldin complex subunit 2

      Status: VALIDATED

      Source sequence(s)
      BC089872, BF420607, CB613349, CR474249, FM098539
      UniProtKB/TrEMBL
      A6KFS6
      Conserved Domains (1) summary
      pfam15793
      Location:714 → 886
      FAM35_C; Protein family FAM35, C-terminal

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086034.1 Reference GRCr8

      Range
      9554921..9646186 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008771136.4 → XP_008769358.2  shieldin complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      A6KFS6, D3ZH67
      Related
      ENSRNOP00000073233.2, ENSRNOT00000085012.3
      Conserved Domains (1) summary
      pfam15793
      Location:715 → 886
      FAM35_C; Protein family FAM35, C-terminal

    2. XM_063275584.1 → XP_063131654.1  shieldin complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      A6KFS6, D3ZH67

    3. XM_017600194.3 → XP_017455683.1  shieldin complex subunit 2 isoform X5

      Conserved Domains (1) summary
      pfam15793
      Location:229 → 400
      FAM35_C; Protein family FAM35, C-terminal

    4. XM_008771135.4 → XP_008769357.2  shieldin complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      A6KFS6, D3ZH67
      Conserved Domains (1) summary
      pfam15793
      Location:715 → 886
      FAM35_C; Protein family FAM35, C-terminal

    5. XM_017600195.3 → XP_017455684.1  shieldin complex subunit 2 isoform X5

      Conserved Domains (1) summary
      pfam15793
      Location:229 → 400
      FAM35_C; Protein family FAM35, C-terminal

    6. XM_063275586.1 → XP_063131656.1  shieldin complex subunit 2 isoform X2

      UniProtKB/TrEMBL
      A6KFS6
      Related
      ENSRNOP00000069549.3, ENSRNOT00000087737.3

    7. XM_039094703.2 → XP_038950631.1  shieldin complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      A6KFS6, D3ZH67
      Conserved Domains (1) summary
      pfam15793
      Location:715 → 886
      FAM35_C; Protein family FAM35, C-terminal

    8. XM_063275587.1 → XP_063131657.1  shieldin complex subunit 2 isoform X3

      UniProtKB/TrEMBL
      A6KFS6

    9. XM_008771137.4 → XP_008769359.2  shieldin complex subunit 2 isoform X1

      UniProtKB/TrEMBL
      A6KFS6, D3ZH67
      Conserved Domains (1) summary
      pfam15793
      Location:715 → 886
      FAM35_C; Protein family FAM35, C-terminal

    10. XM_063275588.1 → XP_063131658.1  shieldin complex subunit 2 isoform X4

    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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

    Molecular Biology Databases
    Research Materials
    Tools