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Gen1 GEN1, Holliday junction 5' flap endonuclease [ Mus musculus (house mouse) ]

Gene ID: 209334, updated on 12-May-2024

Summary

Official Symbol
Gen1provided by MGI
Official Full Name
GEN1, Holliday junction 5' flap endonucleaseprovided by MGI
Primary source
MGI:MGI:2443149
See related
Ensembl:ENSMUSG00000051235 AllianceGenome:MGI:2443149
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
5830483C08Rik
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 act upstream of or within DNA repair. Predicted to be located in centrosome. Is expressed in embryo; nephric duct; and neural tube. Orthologous to human GEN1 (GEN1 Holliday junction 5' flap endonuclease). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in liver E14 (RPKM 2.5), CNS E11.5 (RPKM 2.1) and 12 other tissues See more
Orthologs
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Genomic context

See Gen1 in Genome Data Viewer
Location:
12 A1.1; 12 5.58 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (11288929..11316030, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (11238928..11266029, complement)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 9530020I12 gene Neighboring gene STARR-seq mESC enhancer starr_31537 Neighboring gene STARR-seq mESC enhancer starr_31538 Neighboring gene STARR-positive B cell enhancer ABC_E7120 Neighboring gene mesogenin 1 Neighboring gene STARR-positive B cell enhancer ABC_E8479 Neighboring gene structural maintenance of chromosomes 6 Neighboring gene STARR-seq mESC enhancer starr_31540 Neighboring gene microRNA 7675 Neighboring gene visinin-like 1 Neighboring gene STARR-seq mESC enhancer starr_31541

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 
  • Gene trapped (1) 
  • Targeted (1)  1 citation
  • Transposon induced (1)  1 citation

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC115970, 5830483C08Rik

Gene Ontology Provided by MGI

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 DNA binding IEA
Inferred from Electronic Annotation
more info
 
enables catalytic activity IEA
Inferred from Electronic Annotation
more info
 
enables crossover junction DNA endonuclease activity ISO
Inferred from Sequence Orthology
more info
 
enables endonuclease activity IEA
Inferred from Electronic Annotation
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 hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables magnesium ion binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
 
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in centrosome ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
flap endonuclease GEN homolog 1
Names
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_177331.5NP_796305.3  flap endonuclease GEN homolog 1

    See identical proteins and their annotated locations for NP_796305.3

    Status: VALIDATED

    Source sequence(s)
    AC104880, BC090653
    Consensus CDS
    CCDS36403.1
    UniProtKB/Swiss-Prot
    B2RR04, Q3TYY2, Q5CZW6, Q8BMI4, Q8C0J0
    UniProtKB/TrEMBL
    A0A1W2P6M6
    Related
    ENSMUSP00000132098.2, ENSMUST00000166117.4
    Conserved Domains (3) summary
    cd09869
    Location:2206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397457
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195337
    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_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    11288929..11316030 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017315010.3XP_017170499.1  flap endonuclease GEN homolog 1 isoform X5

    Conserved Domains (1) summary
    pfam18704
    Location:220
    Chromo_2; Chromatin organization modifier domain 2
  2. XM_006515041.3XP_006515104.1  flap endonuclease GEN homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006515104.1

    UniProtKB/Swiss-Prot
    B2RR04, Q3TYY2, Q5CZW6, Q8BMI4, Q8C0J0
    UniProtKB/TrEMBL
    A0A1W2P6M6
    Conserved Domains (3) summary
    cd09869
    Location:2206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397457
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195337
    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_006515040.4XP_006515103.1  flap endonuclease GEN homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006515103.1

    UniProtKB/Swiss-Prot
    B2RR04, Q3TYY2, Q5CZW6, Q8BMI4, Q8C0J0
    UniProtKB/TrEMBL
    A0A1W2P6M6
    Conserved Domains (3) summary
    cd09869
    Location:2206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397457
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195337
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination
  4. XM_006515042.4XP_006515105.1  flap endonuclease GEN homolog 1 isoform X2

    UniProtKB/TrEMBL
    A0A1W2P6M6
    Related
    ENSMUSP00000151310.2, ENSMUST00000218487.2
    Conserved Domains (3) summary
    cd09869
    Location:1141
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:332392
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:130272
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination
  5. XM_011243852.3XP_011242154.1  flap endonuclease GEN homolog 1 isoform X4

    UniProtKB/TrEMBL
    A0A1W2P6M6
    Conserved Domains (3) summary
    pfam18704
    Location:296356
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:94236
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination
    cl28905
    Location:16105
    PIN_SF; PIN (PilT N terminus) domain: Superfamily
  6. XM_011243851.3XP_011242153.1  flap endonuclease GEN homolog 1 isoform X3

    UniProtKB/TrEMBL
    A0A1W2P6M6
    Conserved Domains (3) summary
    pfam18704
    Location:318378
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:116258
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination
    cl28905
    Location:2127
    PIN_SF; PIN (PilT N terminus) domain: Superfamily
  7. XM_006515039.4XP_006515102.1  flap endonuclease GEN homolog 1 isoform X1

    See identical proteins and their annotated locations for XP_006515102.1

    UniProtKB/Swiss-Prot
    B2RR04, Q3TYY2, Q5CZW6, Q8BMI4, Q8C0J0
    UniProtKB/TrEMBL
    A0A1W2P6M6
    Conserved Domains (3) summary
    cd09869
    Location:2206
    PIN_GEN1; FEN-like PIN domains of Gap Endonuclease 1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
    pfam18704
    Location:397457
    Chromo_2; Chromatin organization modifier domain 2
    cl22433
    Location:195337
    H3TH_StructSpec-5'-nucleases; H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination