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    Crlf3 cytokine receptor-like factor 3 [ Mus musculus (house mouse) ]

    Gene ID: 54394, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Crlf3provided by MGI
    Official Full Name
    cytokine receptor-like factor 3provided by MGI
    Primary source
    MGI:MGI:1860086
    See related
    Ensembl:ENSMUSG00000017561 AllianceGenome:MGI:1860086
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Creme9; Cytor4
    Summary
    This gene encodes a cytokine receptor-like factor that contains a fibronectin type 3 domain. The encoded protein may act as a negative regulator of the cell cycle. There is a pseudogene for this gene on chromosome 1. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2013]
    Expression
    Broad expression in liver E14 (RPKM 9.6), liver E14.5 (RPKM 8.9) and 25 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Crlf3 in Genome Data Viewer
    Location:
    11 B5; 11 47.43 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (79937319..79971976, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (80046493..80081153, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_30132 Neighboring gene predicted gene, 30875 Neighboring gene SUZ12 polycomb repressive complex 2 subunit Neighboring gene STARR-positive B cell enhancer ABC_E9368 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:79881110-79881263 Neighboring gene STARR-seq mESC enhancer starr_30136 Neighboring gene ATPase family, AAA domain containing 5 Neighboring gene STARR-seq mESC enhancer starr_30137 Neighboring gene STARR-seq mESC enhancer starr_30138 Neighboring gene transcription elongation factor, mitochondrial

    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. CRLF3 plays a key role in the final stage of platelet genesis and is a potential therapeutic target for thrombocythemia. Bennett C, et al. Blood, 2022 Apr 7. PMID 35051265, Free PMC Article
    2. Rapid conversion of EUCOMM/KOMP-CSD alleles in mouse embryos using a cell-permeable Cre recombinase. Ryder E, et al. Transgenic Res, 2014 Feb. PMID 24197666, Free PMC Article
    3. A common single nucleotide variant in the cytokine receptor-like factor-3 (CRLF3) gene causes neuronal deficits in human and mouse cells. Wilson AF, et al. Hum Mol Genet, 2023 Dec 1. PMID 37712888, Free PMC Article
    4. Complete physical map and gene content of the human NF1 tumor suppressor region in human and mouse. Jenne DE, et al. Genes Chromosomes Cancer, 2003 Jun. PMID 12696059
    5. Genome-wide generation and systematic phenotyping of knockout mice reveals new roles for many genes. White JK, et al. Cell, 2013 Jul 18. PMID 23870131, Free PMC Article

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. A common single nucleotide variant in the cytokine receptor-like factor-3 (CRLF3) gene causes neuronal deficits in human and mouse cells.
      Title: A common single nucleotide variant in the cytokine receptor-like factor-3 (CRLF3) gene causes neuronal deficits in human and mouse cells.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    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 identical protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of G1/S transition of mitotic cell cycle ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of G1/S transition of mitotic cell cycle ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cell growth ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of receptor signaling pathway via JAK-STAT ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of receptor signaling pathway via JAK-STAT ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    cytokine receptor-like factor 3
    Names
    cytokine receptor-like molecule 9
    cytokine receptor-related factor 4

    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_001277106.1 → NP_001264035.1  cytokine receptor-like factor 3 isoform 2

      See identical proteins and their annotated locations for NP_001264035.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (2) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK037880, AK137528, AL591113, AW986170
      Consensus CDS
      CCDS70260.1
      UniProtKB/Swiss-Prot
      Q9Z2L7
      Related
      ENSMUSP00000099523.4, ENSMUST00000103233.10
      Conserved Domains (2) summary
      cd00063
      Location:181 → 267
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cl23765
      Location:17 → 113
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    2. NM_018776.2 → NP_061246.1  cytokine receptor-like factor 3 isoform 1

      See identical proteins and their annotated locations for NP_061246.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK037880, AK137528, AL591113, AW986170
      Consensus CDS
      CCDS25126.1
      UniProtKB/Swiss-Prot
      Q5SYK6, Q91W21, Q9R262, Q9Z2L7
      Related
      ENSMUSP00000060028.9, ENSMUST00000061283.15
      Conserved Domains (2) summary
      cd00063
      Location:181 → 267
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      cl23765
      Location:17 → 113
      iSH2_PI3K_IA_R; Inter-Src homology 2 (iSH2) helical domain of Class IA Phosphoinositide 3-kinase Regulatory subunits

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      79937319..79971976 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_001780029.3 RNA Sequence

    2. XR_004936994.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9Z2L7.1 GenPept UniProtKB/Swiss-Prot:Q9Z2L7

    Gene LinkOut

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

    Chemical Information
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