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

Gene ID: 292127, updated on 17-Aug-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' exodeoxyribonuclease activity and damaged DNA binding activity. Predicted to be involved in double-strand break repair via nonhomologous end joining; interstrand cross-link repair; and protection from non-homologous end joining at telomere. 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, Apr 2022]
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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