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    Rlf rearranged L-myc fusion sequence [ Mus musculus (house mouse) ]

    Gene ID: 109263, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Rlfprovided by MGI
    Official Full Name
    rearranged L-myc fusion sequenceprovided by MGI
    Primary source
    MGI:MGI:1924705
    See related
    Ensembl:ENSMUSG00000049878 AllianceGenome:MGI:1924705
    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
    MommeD8; 9230110M18Rik
    Summary
    Predicted to enable DNA binding activity and DNA-binding transcription factor activity, RNA polymerase II-specific. Acts upstream of or within histone H3-K4 monomethylation and regulation of DNA methylation. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; liver; male reproductive system; spleen; and urinary system. Orthologous to human RLF (RLF zinc finger). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 5.5), CNS E18 (RPKM 5.5) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    4 D2.2; 4 56.8 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (121003080..121072318, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (121145883..121215121, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene SEC61 translocon subunit gamma, pseudogene 3 Neighboring gene predicted gene 12882 Neighboring gene STARR-positive B cell enhancer ABC_E8954 Neighboring gene STARR-seq mESC enhancer starr_11261 Neighboring gene predicted gene, 30102 Neighboring gene predicted gene, 40239 Neighboring gene STARR-seq mESC enhancer starr_11263 Neighboring gene STARR-seq mESC enhancer starr_11264 Neighboring gene predicted gene 12888

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. A genome-wide screen for modifiers of transgene variegation identifies genes with critical roles in development. Ashe A, et al. Genome Biol, 2008. PMID 19099580, Free PMC Article
    2. The recently identified modifier of murine metastable epialleles, Rearranged L-Myc Fusion, is involved in maintaining epigenetic marks at CpG island shores and enhancers. Harten SK, et al. BMC Biol, 2015 Mar 26. PMID 25857663, Free PMC Article
    3. An ENU mutagenesis screen identifies novel and known genes involved in epigenetic processes in the mouse. Daxinger L, et al. Genome Biol, 2013. PMID 24025402, Free PMC Article
    4. Control of cardiac jelly dynamics by NOTCH1 and NRG1 defines the building plan for trabeculation. Del Monte-Nieto G, et al. Nature, 2018 May. PMID 29743679
    5. Loss of Rearranged L-Myc Fusion (RLF) results in defects in heart development in the mouse. Bourke LM, et al. Differentiation, 2017 Mar-Apr. PMID 27930960

    See all (24) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Our study highlights the importance of RLF-dependent epigenetic modifications to DNA for maintaining correct gene regulatory network and intercellular signalling interactions during heart chamber and septal development.
      Title: Loss of Rearranged L-Myc Fusion (RLF) results in defects in heart development in the mouse.
    2. This study provides the first evidence that the epigenetic modifier Rlf is involved in the maintenance of DNA methylation at enhancers and CpG island shores across the genome.
      Title: The recently identified modifier of murine metastable epialleles, Rearranged L-Myc Fusion, is involved in maintaining epigenetic marks at CpG island shores and enhancers.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Chemically induced (ENU) (3)  1 citation
    • Endonuclease-mediated (3) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within negative regulation of heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    zinc finger protein Rlf

    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_001346660.1 → NP_001333589.1  zinc finger protein Rlf

      Status: VALIDATED

      Source sequence(s)
      AL606927
      Consensus CDS
      CCDS84789.1
      UniProtKB/TrEMBL
      A2A7F4, E9Q532
      Related
      ENSMUSP00000050825.6, ENSMUST00000056635.13

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      121003080..121072318 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017319915.2 → XP_017175404.1  zinc finger protein Rlf isoform X1

      UniProtKB/TrEMBL
      E9Q532
      Conserved Domains (2) summary
      COG5236
      Location:426 → 602
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:496 → 516
      ZF_C2H2; C2H2 Zn finger [structural motif]

    2. XM_006502657.4 → XP_006502720.1  zinc finger protein Rlf isoform X1

      See identical proteins and their annotated locations for XP_006502720.1

      UniProtKB/TrEMBL
      E9Q532
      Conserved Domains (2) summary
      COG5236
      Location:426 → 602
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:496 → 516
      ZF_C2H2; C2H2 Zn finger [structural motif]

    3. XM_006502658.2 → XP_006502721.1  zinc finger protein Rlf isoform X1

      See identical proteins and their annotated locations for XP_006502721.1

      UniProtKB/TrEMBL
      E9Q532
      Conserved Domains (2) summary
      COG5236
      Location:426 → 602
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:496 → 516
      ZF_C2H2; C2H2 Zn finger [structural motif]

    4. XM_036163579.1 → XP_036019472.1  zinc finger protein Rlf isoform X1

      UniProtKB/TrEMBL
      E9Q532
      Conserved Domains (2) summary
      COG5236
      Location:426 → 602
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:496 → 516
      ZF_C2H2; C2H2 Zn finger [structural motif]

    5. XM_030253080.2 → XP_030108940.1  zinc finger protein Rlf isoform X1

      UniProtKB/TrEMBL
      E9Q532
      Conserved Domains (2) summary
      COG5236
      Location:426 → 602
      COG5236; Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
      sd00017
      Location:496 → 516
      ZF_C2H2; C2H2 Zn finger [structural motif]

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001081013.1: Suppressed sequence

      Description
      NM_001081013.1: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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