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Dclre1b DNA cross-link repair 1B [ Rattus norvegicus (Norway rat) ]

Gene ID: 310745, updated on 2-May-2024

Summary

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Official Symbol
Dclre1bprovided by RGD
Official Full Name
DNA cross-link repair 1Bprovided by RGD
Primary source
RGD:1310343
See related
Ensembl:ENSRNOG00000019367 AllianceGenome:RGD:1310343
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
Summary
Predicted to enable 5'-3' exodeoxyribonuclease activity; damaged DNA binding activity; and protein homodimerization activity. Predicted to be involved in DNA metabolic process. Predicted to be located in centrosome; chromosome, telomeric region; and nuclear body. Orthologous to human DCLRE1B (DNA cross-link repair 1B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Spleen (RPKM 70.0), Thymus (RPKM 66.1) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
2q34
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (193998350..194006873, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (191309909..191318399, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (206285085..206293599, complement)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102547265 Neighboring gene olfactomedin-like 3 Neighboring gene homeodomain interacting protein kinase 1 Neighboring gene uncharacterized LOC108350077 Neighboring gene adaptor related protein complex 4 subunit beta 1 Neighboring gene Bcl2-like 15

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. SNMIB/Apollo protects leading-strand telomeres against NHEJ-mediated repair. Lam YC, et al. EMBO J, 2010 Jul 7. PMID 20551906, Free PMC Article
  2. SNM1B/Apollo interacts with astrin and is required for the prophase cell cycle checkpoint. Liu L, et al. Cell Cycle, 2009 Feb 15. PMID 19197158
  3. The Apollo 5' exonuclease functions together with TRF2 to protect telomeres from DNA repair. Lenain C, et al. Curr Biol, 2006 Jul 11. PMID 16730175
  4. 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
  5. Apollo contributes to G overhang maintenance and protects leading-end telomeres. Wu P, et al. Mol Cell, 2010 Aug 27. PMID 20619712, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC114481

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' exonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables 5'-3' exonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables 5'-3' exonuclease activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables beta-lactamase activity IEA
Inferred from Electronic Annotation
more info
  
enables beta-lactamase activity ISO
Inferred from Sequence Orthology
more info
  
enables beta-lactamase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables damaged DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables protein homodimerization activity IEA
Inferred from Electronic Annotation
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
enables protein-containing complex binding IEA
Inferred from Electronic Annotation
more info
  
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA repair IEA
Inferred from Electronic Annotation
more info
  
involved_in biological_process ND
No biological Data available
more info
  
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
  
involved_in interstrand cross-link repair IEA
Inferred from Electronic Annotation
more info
  
involved_in interstrand cross-link repair ISO
Inferred from Sequence Orthology
more info
  
involved_in protection from non-homologous end joining at telomere IEA
Inferred from Electronic Annotation
more info
  
involved_in protection from non-homologous end joining at telomere ISO
Inferred from Sequence Orthology
more info
  
involved_in protection from non-homologous end joining at telomere ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in telomere capping ISO
Inferred from Sequence Orthology
more info
  
involved_in telomere maintenance IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in telomere maintenance ISO
Inferred from Sequence Orthology
more info
  
involved_in telomere maintenance ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in telomere maintenance via telomere lengthening IEA
Inferred from Electronic Annotation
more info
  
involved_in telomere maintenance via telomere lengthening ISO
Inferred from Sequence Orthology
more info
  
involved_in telomeric 3' overhang formation IEA
Inferred from Electronic Annotation
more info
  
involved_in telomeric 3' overhang formation ISO
Inferred from Sequence Orthology
more info
  
involved_in telomeric 3' overhang formation ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in telomeric loop formation IEA
Inferred from Electronic Annotation
more info
  
involved_in telomeric loop formation ISO
Inferred from Sequence Orthology
more info
  
involved_in telomeric loop formation ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in centrosome IEA
Inferred from Electronic Annotation
more info
  
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  
located_in centrosome ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in chromosome, telomeric region IEA
Inferred from Electronic Annotation
more info
  
located_in chromosome, telomeric region ISO
Inferred from Sequence Orthology
more info
  
located_in chromosome, telomeric region ISS
Inferred from Sequence or Structural Similarity
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear body IEA
Inferred from Electronic Annotation
more info
  
located_in nuclear body ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
5' exonuclease Apollo
Names
DNA cross-link repair 1B protein
SNM1 homolog B
beta-lactamase MBLAC2
NP_001020858.2
NP_001376151.1
XP_006233142.1
XP_038958331.1
XP_038958333.1
XP_038958334.1

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_001025687.2 → NP_001020858.2  5' exonuclease Apollo

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/Swiss-Prot
    Q4KLY6
    UniProtKB/TrEMBL
    A6K3M4, G3V8I3
    Related
    ENSRNOP00000026213.7, ENSRNOT00000026213.7
    Conserved Domains (3) summary
    cd11662
    Location:492 → 524
    apollo_TRF2_binding; TRF2-binding region of apollo and similar proteins
    cd16273
    Location:6 → 151
    SNM1A-1C-like_MBL-fold; SNM1A , artemis/SNM1C, yeast Pso2p, and related proteins; MBL-fold metallo-hydrolase domain
    pfam07522
    Location:216 → 298
    DRMBL; DNA repair metallo-beta-lactamase

  2. NM_001389222.1 → NP_001376151.1  5' exonuclease Apollo

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000002
    UniProtKB/Swiss-Prot
    Q4KLY6
    UniProtKB/TrEMBL
    A6K3M4, G3V8I3
    Conserved Domains (3) summary
    cd11662
    Location:492 → 524
    apollo_TRF2_binding; TRF2-binding region of apollo and similar proteins
    cd16273
    Location:6 → 151
    SNM1A-1C-like_MBL-fold; SNM1A , artemis/SNM1C, yeast Pso2p, and related proteins; MBL-fold metallo-hydrolase domain
    pfam07522
    Location:216 → 298
    DRMBL; DNA repair metallo-beta-lactamase

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_086020.1 Reference GRCr8

    Range
    193998350..194006873 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006233080.5 → XP_006233142.1  5' exonuclease Apollo isoform X1

    UniProtKB/Swiss-Prot
    Q4KLY6
    Conserved Domains (3) summary
    cd11662
    Location:431 → 463
    apollo_TRF2_binding; TRF2-binding region of apollo and similar proteins
    pfam07522
    Location:155 → 237
    DRMBL; DNA repair metallo-beta-lactamase
    cl23716
    Location:6 → 119
    metallo-hydrolase-like_MBL-fold; mainly hydrolytic enzymes and related proteins which carry out various biological functions; MBL-fold metallohydrolase domain

  2. XM_039102403.2 → XP_038958331.1  5' exonuclease Apollo isoform X2

    UniProtKB/TrEMBL
    A6K3M5
    Related
    ENSRNOP00000086363.1
    Conserved Domains (2) summary
    cd11662
    Location:356 → 388
    apollo_TRF2_binding; TRF2-binding region of apollo and similar proteins
    pfam07522
    Location:80 → 162
    DRMBL; DNA repair metallo-beta-lactamase

  3. XM_039102405.2 → XP_038958333.1  5' exonuclease Apollo isoform X3

    UniProtKB/TrEMBL
    A0A0G2K494
    Conserved Domains (1) summary
    cd16273
    Location:6 → 151
    SNM1A-1C-like_MBL-fold; SNM1A , artemis/SNM1C, yeast Pso2p, and related proteins; MBL-fold metallo-hydrolase domain

  4. XM_039102406.2 → XP_038958334.1  5' exonuclease Apollo isoform X4

    UniProtKB/TrEMBL
    A0A0G2K494
    Conserved Domains (1) summary
    cd16273
    Location:6 → 151
    SNM1A-1C-like_MBL-fold; SNM1A , artemis/SNM1C, yeast Pso2p, and related proteins; MBL-fold metallo-hydrolase domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4KLY6.2 GenPept UniProtKB/Swiss-Prot:Q4KLY6

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