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Spidr scaffold protein involved in DNA repair [ Rattus norvegicus (Norway rat) ]

Gene ID: 498119, updated on 4-Jan-2025

Summary

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Official Symbol
Spidrprovided by RGD
Official Full Name
scaffold protein involved in DNA repairprovided by RGD
Primary source
RGD:1566036
See related
EnsemblRapid:ENSRNOG00000037851 AllianceGenome:RGD:1566036
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1566036
Summary
Predicted to be involved in several processes, including cellular response to camptothecin; cellular response to hydroxyurea; and regulation of double-strand break repair. Predicted to be active in nuclear chromosome and nucleoplasm. Human ortholog(s) of this gene implicated in 46 XX gonadal dysgenesis. Orthologous to human SPIDR (scaffold protein involved in DNA repair). [provided by Alliance of Genome Resources, Jan 2025]
Expression
Biased expression in Liver (RPKM 95.9), Lung (RPKM 84.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Spidr in Genome Data Viewer
Location:
11q23
Exon count:
24
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (98270779..98511760, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (84766593..85007597, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (89009931..89260361, complement)

Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene plakophilin 2 Neighboring gene Fcf1 rRNA-processing protein, pseudogene 7 Neighboring gene CCAAT/enhancer binding protein delta Neighboring gene uncharacterized LOC134481106 Neighboring gene translation machinery-associated protein 16 pseudogene Neighboring gene mitotic spindle organizing protein 2B Neighboring gene protein kinase, DNA-activated, catalytic subunit

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Scaffolding protein SPIDR/KIAA0146 connects the Bloom syndrome helicase with homologous recombination repair. Wan L, et al. Proc Natl Acad Sci U S A, 2013 Jun 25. PMID 23509288, Free PMC Article
  2. FIGNL1-containing protein complex is required for efficient homologous recombination repair. Yuan J, et al. Proc Natl Acad Sci U S A, 2013 Jun 25. PMID 23754376, Free PMC Article
  3. 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
  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

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC156776

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to camptothecin ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to hydroxyurea ISO
Inferred from Sequence Orthology
more info
  
involved_in cellular response to ionizing radiation ISO
Inferred from Sequence Orthology
more info
  
involved_in double-strand break repair via homologous recombination IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of double-strand break repair ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of protein-containing complex assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of establishment of protein localization to chromosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of establishment of protein localization to chromosome ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in nuclear chromosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nuclear chromosome ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
DNA repair-scaffolding protein
Names
scaffolding protein involved in DNA repair

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_001100988.2 → NP_001094458.1  DNA repair-scaffolding protein

    See identical proteins and their annotated locations for NP_001094458.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000011
    UniProtKB/TrEMBL
    A0A0G2K1R3, A2VD15, E9PSZ4
    Related
    ENSRNOP00000054310.3, ENSRNOT00000057502.6
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 335
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:485 → 864
    DUF4503; Domain of unknown function (DUF4503)

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_086029.1 Reference GRCr8

    Range
    98270779..98511760 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063270716.1 → XP_063126786.1  DNA repair-scaffolding protein isoform X7

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Related
    ENSRNOP00000101694.1, ENSRNOT00000173455.1

  2. XM_008768898.4 → XP_008767120.1  DNA repair-scaffolding protein isoform X4

    UniProtKB/TrEMBL
    A0A0G2K1R3, A0A8I5Y2H8
    Related
    ENSRNOP00000071950.3, ENSRNOT00000089517.3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:542 → 921
    DUF4503; Domain of unknown function (DUF4503)

  3. XM_039088589.2 → XP_038944517.1  DNA repair-scaffolding protein isoform X1

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:542 → 927
    DUF4503; Domain of unknown function (DUF4503)

  4. XM_039088595.2 → XP_038944523.1  DNA repair-scaffolding protein isoform X11

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 335
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:485 → 870
    DUF4503; Domain of unknown function (DUF4503)

  5. XM_039088594.2 → XP_038944522.1  DNA repair-scaffolding protein isoform X10

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Related
    ENSRNOP00000078167.2, ENSRNOT00000111413.2
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:537 → 874
    DUF4503; Domain of unknown function (DUF4503)

  6. XM_039088593.2 → XP_038944521.1  DNA repair-scaffolding protein isoform X9

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:537 → 875
    DUF4503; Domain of unknown function (DUF4503)

  7. XM_039088590.2 → XP_038944518.1  DNA repair-scaffolding protein isoform X3

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:542 → 922
    DUF4503; Domain of unknown function (DUF4503)

  8. XM_063270715.1 → XP_063126785.1  DNA repair-scaffolding protein isoform X6

    UniProtKB/TrEMBL
    A0A0G2K1R3

  9. XM_017598050.3 → XP_017453539.1  DNA repair-scaffolding protein isoform X2

    UniProtKB/TrEMBL
    A0A0G2K1R3

  10. XM_039088591.2 → XP_038944519.1  DNA repair-scaffolding protein isoform X5

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:542 → 909
    DUF4503; Domain of unknown function (DUF4503)

  11. XM_039088592.2 → XP_038944520.1  DNA repair-scaffolding protein isoform X8

    UniProtKB/TrEMBL
    A0A0G2K1R3
    Conserved Domains (2) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
    pfam14951
    Location:542 → 890
    DUF4503; Domain of unknown function (DUF4503)

  12. XM_063270718.1 → XP_063126788.1  DNA repair-scaffolding protein isoform X12

    UniProtKB/TrEMBL
    A6JSR3

  13. XM_063270717.1 → XP_063126787.1  DNA repair-scaffolding protein isoform X12

    UniProtKB/TrEMBL
    A6JSR3

  14. XM_063270720.1 → XP_063126790.1  DNA repair-scaffolding protein isoform X13

  15. XM_063270719.1 → XP_063126789.1  DNA repair-scaffolding protein isoform X12

    UniProtKB/TrEMBL
    A6JSR3

  16. XM_039088598.2 → XP_038944526.1  DNA repair-scaffolding protein isoform X15

    Conserved Domains (1) summary
    pfam14951
    Location:81 → 466
    DUF4503; Domain of unknown function (DUF4503)

  17. XM_039088597.2 → XP_038944525.1  DNA repair-scaffolding protein isoform X14

    Conserved Domains (1) summary
    pfam14950
    Location:11 → 392
    DUF4502; Domain of unknown function (DUF4502)
Nucleotide Protein Strain
Heading Accession and Version

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