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    Ctcfl CCCTC-binding factor like [ Mus musculus (house mouse) ]

    Gene ID: 664799, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ctcflprovided by MGI
    Official Full Name
    CCCTC-binding factor likeprovided by MGI
    Primary source
    MGI:MGI:3652571
    See related
    Ensembl:ENSMUSG00000070495 AllianceGenome:MGI:3652571
    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
    Boris
    Summary
    Enables histone binding activity and sequence-specific DNA binding activity. Involved in genomic imprinting. Located in cytoplasm and nucleus. Is expressed in eye and nervous system. Orthologous to human CTCFL (CCCTC-binding factor like). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in subcutaneous fat pad adult (RPKM 1.3), genital fat pad adult (RPKM 1.1) and 11 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Ctcfl in Genome Data Viewer
    Location:
    2 H3; 2 95.74 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (172935402..172961318, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (173093609..173119525, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:172879441-172879628 Neighboring gene predicted gene, 36337 Neighboring gene predicted gene, 36462 Neighboring gene predicted gene, 36417 Neighboring gene STARR-seq mESC enhancer starr_06608 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:172908254-172908455 Neighboring gene STARR-positive B cell enhancer ABC_E2064 Neighboring gene VISTA enhancer mm1693 Neighboring gene STARR-positive B cell enhancer ABC_E8953 Neighboring gene predicted gene, 40011 Neighboring gene STARR-positive B cell enhancer ABC_E4527 Neighboring gene CCCTC-binding factor like, opposite strand Neighboring gene predicted gene, 36691 Neighboring gene predicted gene, 36749

    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) 
    • Targeted (3)  1 citation

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    is_active_in chromosome IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    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
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    transcriptional repressor CTCFL
    Names
    BORIS
    Brother of the regulator of imprinted sites
    CCCTC-binding factor (zinc finger protein)-like
    CTCF paralog
    CTCF-like protein
    likely orthologue of H. sapiens CCCTC-binding factor-like protein (CTCFL)

    NCBI Reference Sequences (RefSeq)

    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_001081387.2NP_001074856.1  transcriptional repressor CTCFL isoform 2

      See identical proteins and their annotated locations for NP_001074856.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame 3' splice junction compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
      Source sequence(s)
      AL837509, AL928599
      Consensus CDS
      CCDS38349.1
      UniProtKB/Swiss-Prot
      A2APF3, B9EKP6, Q3Y6S0
      Related
      ENSMUSP00000091845.4, ENSMUST00000094287.10
      Conserved Domains (3) summary
      COG5048
      Location:256491
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:344364
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:385409
      zf-H2C2_2; Zinc-finger double domain
    2. NM_001355185.1NP_001342114.1  transcriptional repressor CTCFL isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AL837509, AL928599
      Conserved Domains (2) summary
      COG5048
      Location:256491
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:344364
      ZF_C2H2; C2H2 Zn finger [structural motif]

    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_000068.8 Reference GRCm39 C57BL/6J

      Range
      172935402..172961318 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017319167.2XP_017174656.1  transcriptional repressor CTCFL isoform X1

      Conserved Domains (4) summary
      COG5048
      Location:1981
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:2545
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam13465
      Location:6690
      zf-H2C2_2; Zinc-finger double domain
      pfam13909
      Location:167191
      zf-H2C2_5; C2H2-type zinc-finger domain