U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Fen1 flap structure-specific endonuclease 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 84490, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Fen1provided by RGD
    Official Full Name
    flap structure-specific endonuclease 1provided by RGD
    Primary source
    RGD:621821
    See related
    EnsemblRapid:ENSRNOG00000020531 AllianceGenome:RGD:621821
    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
    Also known as
    FEN-1
    Summary
    Predicted to enable DNA binding activity; metal ion binding activity; and nuclease activity. Involved in memory. Predicted to be located in chromosome, telomeric region; mitochondrion; and nuclear lumen. Predicted to be part of protein-containing complex. Predicted to be active in nucleus. Orthologous to human FEN1 (flap structure-specific endonuclease 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 101.0), Spleen (RPKM 76.7) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Fen1 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (216270016..216274873, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (206845126..206849821, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (226251516..226256160, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene S-formylglutathione hydrolase-like Neighboring gene fatty acid desaturase 1 Neighboring gene transmembrane protein 258 Neighboring gene myelin regulatory factor Neighboring gene diacylglycerol lipase, alpha

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Gene expression of flap endonuclease-1 during cell proliferation and differentiation. Kim IS, et al. Biochim Biophys Acta, 2000 Apr 17. PMID 10771101
    2. Identification of flap structure-specific endonuclease 1 as a factor involved in long-term memory formation of aversive learning. Saavedra-Rodríguez L, et al. J Neurosci, 2009 May 6. PMID 19420241, Free PMC Article
    3. Fen1 mutations result in autoimmunity, chronic inflammation and cancers. Zheng L, et al. Nat Med, 2007 Jul. PMID 17589521
    4. Structural and functional homology between mammalian DNase IV and the 5'-nuclease domain of Escherichia coli DNA polymerase I. Robins P, et al. J Biol Chem, 1994 Nov 18. PMID 7961795
    5. Essential amino acids for substrate binding and catalysis of human flap endonuclease 1. Shen B, et al. J Biol Chem, 1996 Apr 19. PMID 8621570

    See all (19) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. This study defines the fen-1 endonuclease as a new DNA recombination/repair factor involved in the formation of long-term memories.
      Title: Identification of flap structure-specific endonuclease 1 as a factor involved in long-term memory formation of aversive learning.
    Submit: New GeneRIF Correction

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC94425

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 5'-3' exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5'-3' exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables RNA-DNA hybrid ribonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA-DNA hybrid ribonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables exonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables exonuclease activity NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    enables flap endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables magnesium ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables magnesium ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables manganese ion binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables manganese ion binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within DNA replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA replication, removal of RNA primer ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in base-excision repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in memory IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of sister chromatid cohesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromosome, telomeric region ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus 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
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    flap endonuclease 1
    NP_001401385.1
    NP_445882.2
    XP_006231134.1
    XP_006231136.1
    XP_008758467.1
    XP_063131907.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001414456.1 → NP_001401385.1  flap endonuclease 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q5XIP6, Q9JHW7

    2. NM_053430.3 → NP_445882.2  flap endonuclease 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/Swiss-Prot
      Q5XIP6, Q9JHW7
      Conserved Domains (1) summary
      PTZ00217
      Location:1 → 359
      PTZ00217; flap endonuclease-1; Provisional

    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
      216270016..216274873 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006231072.5 → XP_006231134.1  flap endonuclease 1 isoform X1

      Related
      ENSRNOP00000081266.2, ENSRNOT00000104683.2
      Conserved Domains (3) summary
      cd09907
      Location:246 → 315
      H3TH_FEN1-Euk; H3TH domain of Flap Endonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease: Eukaryotic homologs
      cd09867
      Location:30 → 369
      PIN_FEN1; PIN domain of Flap Endonuclease-1, a structure-specific, divalent-metal-ion dependent, 5' nuclease and homologs
      PTZ00217
      Location:26 → 384
      PTZ00217; flap endonuclease-1; Provisional

    2. XM_006231074.5 → XP_006231136.1  flap endonuclease 1 isoform X2

      See identical proteins and their annotated locations for XP_006231136.1

      UniProtKB/Swiss-Prot
      Q5XIP6, Q9JHW7
      Conserved Domains (1) summary
      PTZ00217
      Location:1 → 359
      PTZ00217; flap endonuclease-1; Provisional

    3. XM_063275837.1 → XP_063131907.1  flap endonuclease 1 isoform X2

      UniProtKB/Swiss-Prot
      Q5XIP6, Q9JHW7
      Related
      ENSRNOP00000078106.1, ENSRNOT00000106648.2

    4. XM_008760245.4 → XP_008758467.1  flap endonuclease 1 isoform X2

      See identical proteins and their annotated locations for XP_008758467.1

      UniProtKB/Swiss-Prot
      Q5XIP6, Q9JHW7
      Conserved Domains (1) summary
      PTZ00217
      Location:1 → 359
      PTZ00217; flap endonuclease-1; Provisional
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XIP6.1 GenPept UniProtKB/Swiss-Prot:Q5XIP6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous