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    Clcf1 cardiotrophin-like cytokine factor 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 365395, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Clcf1provided by RGD
    Official Full Name
    cardiotrophin-like cytokine factor 1provided by RGD
    Primary source
    RGD:1303171
    See related
    AllianceGenome:RGD:1303171
    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
    Clc; Bsf3; NNT-1
    Summary
    Predicted to enable cytokine activity. Predicted to contribute to ciliary neurotrophic factor receptor binding activity. Predicted to be involved in several processes, including positive regulation of B cell activation; positive regulation of astrocyte differentiation; and positive regulation of tyrosine phosphorylation of STAT protein. Predicted to act upstream of or within B cell differentiation and cell surface receptor signaling pathway. Predicted to be part of CNTFR-CLCF1 complex and CRLF-CLCF1 complex. Predicted to be active in extracellular region. Human ortholog(s) of this gene implicated in cold-induced sweating syndrome 2. Orthologous to human CLCF1 (cardiotrophin like cytokine factor 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 51.7), Spleen (RPKM 26.1) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Clcf1 in Genome Data Viewer
    Location:
    1q43
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (210937763..210947064)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (201507763..201517607)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (219468866..219472445)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene TBC1 domain family, member 10C Neighboring gene protein phosphatase 1 catalytic subunit alpha Neighboring gene RAD9 checkpoint clamp component A Neighboring gene DNA polymerase delta 4, accessory subunit Neighboring gene uncharacterized LOC103691274

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. Regulatory effects of novel neurotrophin-1/b cell-stimulating factor-3 (cardiotrophin-like cytokine) on B cell function. Senaldi G, et al. J Immunol, 2002 Jun 1. PMID 12023368
    2. Novel neurotrophin-1/B cell-stimulating factor-3: a cytokine of the IL-6 family. Senaldi G, et al. Proc Natl Acad Sci U S A, 1999 Sep 28. PMID 10500198, Free PMC Article
    3. Two different contact sites are recruited by cardiotrophin-like cytokine (CLC) to generate the CLC/CLF and CLC/sCNTFRalpha composite cytokines. Perret D, et al. J Biol Chem, 2004 Oct 15. PMID 15272019
    4. Cardiotrophin-like cytokine induces astrocyte differentiation of fetal neuroepithelial cells via activation of STAT3. Uemura A, et al. Cytokine, 2002 Apr 7. PMID 12090754
    5. The ciliary neurotrophic factor receptor alpha component induces the secretion of and is required for functional responses to cardiotrophin-like cytokine. Plun-Favreau H, et al. EMBO J, 2001 Apr 2. PMID 11285233, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC112574

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    contributes_to ciliary neurotrophic factor receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ciliary neurotrophic factor receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cytokine activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to cytokine activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables cytokine activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within B cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within cell surface receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell surface receptor signaling pathway via JAK-STAT IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell surface receptor signaling pathway via JAK-STAT ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell surface receptor signaling pathway via STAT ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of neuron apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of B cell proliferation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of B cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of astrocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of immunoglobulin production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of isotype switching to IgE isotypes ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of CNTFR-CLCF1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of CNTFR-CLCF1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of CRLF-CLCF1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of CRLF-CLCF1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in extracellular region IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    cardiotrophin-like cytokine factor 1
    Names
    B-cell stimulating factor 3
    novel neurotrophin-1

    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_001399751.1 → NP_001386680.1  cardiotrophin-like cytokine factor 1 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001
      UniProtKB/TrEMBL
      A6HYV9, F7EKG3

    2. NM_001399752.1 → NP_001386681.1  cardiotrophin-like cytokine factor 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000001

    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
      210937763..210947064
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039085475.2 → XP_038941403.2  cardiotrophin-like cytokine factor 1 isoform X1

      UniProtKB/TrEMBL
      Q4KMB8

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_207615.2: Suppressed sequence

      Description
      NM_207615.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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