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Gen1 GEN1 Holliday junction 5' flap endonuclease [ Rattus norvegicus (Norway rat) ]

Gene ID: 298884, updated on 5-Mar-2024

Summary

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Official Symbol
Gen1provided by RGD
Official Full Name
GEN1 Holliday junction 5' flap endonucleaseprovided by RGD
Primary source
RGD:1559792
See related
Ensembl:ENSRNOG00000004667 AllianceGenome:RGD:1559792
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
RGD1559792
Summary
Predicted to enable several functions, including endodeoxyribonuclease activity; magnesium ion binding activity; and protein homodimerization activity. Predicted to be involved in DNA metabolic process and regulation of cell cycle process. Predicted to be located in centrosome. Orthologous to human GEN1 (GEN1 Holliday junction 5' flap endonuclease). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 59.2), Spleen (RPKM 50.9) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Gen1 in Genome Data Viewer
Location:
6q15
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (39666675..39697480, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (33947599..33978461, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (36910064..36940868, complement)

Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene potassium voltage-gated channel, modifier subfamily S, member 3 Neighboring gene mesogenin 1 Neighboring gene uncharacterized LOC102547959 Neighboring gene structural maintenance of chromosomes 6 Neighboring gene visinin-like 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
  • 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. Resolution of single and double Holliday junction recombination intermediates by GEN1. Shah Punatar R, et al. Proc Natl Acad Sci U S A, 2017 Jan 17. PMID 28049850, Free PMC Article
  2. Human Holliday junction resolvase GEN1 uses a chromodomain for efficient DNA recognition and cleavage. Lee SH, et al. Elife, 2015 Dec 18. PMID 26682650, Free PMC Article
  3. GEN1 promotes Holliday junction resolution by a coordinated nick and counter-nick mechanism. Chan YW, et al. Nucleic Acids Res, 2015 Dec 15. PMID 26578604, Free PMC Article
  4. A novel role of human holliday junction resolvase GEN1 in the maintenance of centrosome integrity. Gao M, et al. PLoS One, 2012. PMID 23166748, Free PMC Article
  5. Human GEN1 and the SLX4-associated nucleases MUS81 and SLX1 are essential for the resolution of replication-induced Holliday junctions. Garner E, et al. Cell Rep, 2013 Oct 17. PMID 24080495, Free PMC Article

See all (8) citations in PubMed

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'-flap endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 5'-flap endonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables crossover junction DNA endonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables four-way junction DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables four-way junction DNA binding ISO
Inferred from Sequence Orthology
more info
  
enables magnesium ion binding ISO
Inferred from Sequence Orthology
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of mitotic cell cycle spindle assembly checkpoint ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of centrosome duplication ISO
Inferred from Sequence Orthology
more info
  
involved_in replication fork processing ISO
Inferred from Sequence Orthology
more info
  
involved_in resolution of DNA recombination intermediates ISO
Inferred from Sequence Orthology
more info
  
involved_in resolution of mitotic recombination intermediates ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in centrosome ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
flap endonuclease GEN homolog 1
Names
Gen endonuclease homolog 1
Gen homolog 1, endonuclease

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_001106717.1 → NP_001100187.1  flap endonuclease GEN homolog 1

    See identical proteins and their annotated locations for NP_001100187.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473947
    UniProtKB/TrEMBL
    A6HAP4, D3ZVS5
    Related
    ENSRNOP00000006470.4, ENSRNOT00000006470.5
    Conserved Domains (3) summary
    cd09869
    Location:2 → 206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397 → 457
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195 → 337
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination

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_086024.1 Reference GRCr8

    Range
    39666675..39697480 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039111944.2 → XP_038967872.1  flap endonuclease GEN homolog 1 isoform X2

    UniProtKB/TrEMBL
    A6HAP4, D3ZVS5
    Conserved Domains (3) summary
    cd09869
    Location:2 → 206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397 → 457
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195 → 337
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination

  2. XM_006239896.4 → XP_006239958.1  flap endonuclease GEN homolog 1 isoform X1

    Conserved Domains (2) summary
    cd09869
    Location:1 → 193
    PIN_GEN1; PIN domain of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    cl22433
    Location:195 → 337
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination

  3. XM_063261649.1 → XP_063117719.1  flap endonuclease GEN homolog 1 isoform X3

  4. XM_039111945.2 → XP_038967873.1  flap endonuclease GEN homolog 1 isoform X4

    Conserved Domains (3) summary
    cd09869
    Location:2 → 206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397 → 420
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195 → 337
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination

RNA

  1. XR_010052061.1 RNA Sequence

  2. XR_005505464.2 RNA Sequence

  3. XR_005505465.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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