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

Gene ID: 365395, updated on 2-Nov-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, Nov 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 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
  
involved_in positive regulation of tyrosine phosphorylation of STAT protein 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
  

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

  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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