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    Dclre1a DNA cross-link repair 1A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 292127, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Dclre1aprovided by RGD
    Official Full Name
    DNA cross-link repair 1Aprovided by RGD
    Primary source
    RGD:1306156
    See related
    EnsemblRapid:ENSRNOG00000026204 AllianceGenome:RGD:1306156
    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
    Summary
    Predicted to enable 5'-3' DNA exonuclease activity; beta-lactamase activity; and damaged DNA binding activity. Predicted to be involved in double-strand break repair via nonhomologous end joining and interstrand cross-link repair. Predicted to act upstream of or within nucleotide-excision repair. Predicted to be located in fibrillar center and nucleoplasm. Orthologous to human DCLRE1A (DNA cross-link repair 1A). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Liver (RPKM 57.3), Heart (RPKM 53.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dclre1a in Genome Data Viewer
    Location:
    1q55
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (265575087..265594987, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (255569911..255589815, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (277335792..277355701, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene ribosomal protein L19, pseudogene 2 Neighboring gene NHL repeat containing 2 Neighboring gene uncharacterized LOC102547573 Neighboring gene uncharacterized LOC120100064 Neighboring gene adrenoceptor beta 1

    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 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. Characterization of the human SNM1A and SNM1B/Apollo DNA repair exonucleases. Sengerová B, et al. J Biol Chem, 2012 Jul 27. PMID 22692201, Free PMC Article
    2. Disruption of mouse SNM1 causes increased sensitivity to the DNA interstrand cross-linking agent mitomycin C. Dronkert ML, et al. Mol Cell Biol, 2000 Jul. PMID 10848582, 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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 5'-3' DNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5'-3' DNA exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables beta-lactamase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables damaged DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in double-strand break repair via nonhomologous end joining IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in interstrand cross-link repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within nucleotide-excision repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in fibrillar center IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in fibrillar center ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    DNA cross-link repair 1A protein
    NP_001099671.1
    XP_006231696.1
    XP_006231697.1
    XP_038959100.1
    XP_038959103.1
    XP_038959118.1
    XP_038959123.1
    XP_038959129.1
    XP_063138844.1

    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_001106201.1 → NP_001099671.1  DNA cross-link repair 1A protein

      See identical proteins and their annotated locations for NP_001099671.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473986
      UniProtKB/TrEMBL
      A6JI25, D3Z924
      Related
      ENSRNOP00000034952.4, ENSRNOT00000036321.7
      Conserved Domains (2) summary
      pfam07522
      Location:900 → 1005
      DRMBL; DNA repair metallo-beta-lactamase
      cl23716
      Location:675 → 830
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    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_086019.1 Reference GRCr8

      Range
      265575087..265594987 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063282774.1 → XP_063138844.1  DNA cross-link repair 1A protein isoform X2

    2. XM_006231635.4 → XP_006231697.1  DNA cross-link repair 1A protein isoform X1

      See identical proteins and their annotated locations for XP_006231697.1

      UniProtKB/TrEMBL
      A6JI25, D3Z924
      Conserved Domains (2) summary
      pfam07522
      Location:900 → 1005
      DRMBL; DNA repair metallo-beta-lactamase
      cl23716
      Location:675 → 830
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    3. XM_039103172.2 → XP_038959100.1  DNA cross-link repair 1A protein isoform X2

      Conserved Domains (2) summary
      pfam07522
      Location:853 → 958
      DRMBL; DNA repair metallo-beta-lactamase
      cl23716
      Location:675 → 778
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    4. XM_039103175.2 → XP_038959103.1  DNA cross-link repair 1A protein isoform X3

      Related
      ENSRNOP00000107904.1, ENSRNOT00000148817.1
      Conserved Domains (2) summary
      pfam07522
      Location:900 → 929
      DRMBL; DNA repair metallo-beta-lactamase
      cl23716
      Location:675 → 830
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    5. XM_006231634.3 → XP_006231696.1  DNA cross-link repair 1A protein isoform X1

      See identical proteins and their annotated locations for XP_006231696.1

      UniProtKB/TrEMBL
      A6JI25, D3Z924
      Conserved Domains (2) summary
      pfam07522
      Location:900 → 1005
      DRMBL; DNA repair metallo-beta-lactamase
      cl23716
      Location:675 → 830
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    6. XM_039103195.2 → XP_038959123.1  DNA cross-link repair 1A protein isoform X4

      Conserved Domains (1) summary
      cl23716
      Location:675 → 779
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    7. XM_039103190.2 → XP_038959118.1  DNA cross-link repair 1A protein isoform X4

      Conserved Domains (1) summary
      cl23716
      Location:675 → 779
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    8. XM_039103201.2 → XP_038959129.1  DNA cross-link repair 1A protein isoform X5

      Conserved Domains (1) summary
      cl23716
      Location:675 → 779
      metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

    RNA

    1. XR_005500375.2 RNA Sequence

    2. XR_010064004.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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