Clcf1 cardiotrophin-like cytokine factor 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Clcf1provided by MGI
Official Full Name: cardiotrophin-like cytokine factor 1provided by MGI
Primary source: MGI:MGI:1930088
See related: Ensembl:ENSMUSG00000040663 AllianceGenome:MGI:1930088
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: CLC; Bsf3; BSF-3; NNT-1
Summary: Enables cytokine activity. Involved in positive regulation of B cell activation; positive regulation of astrocyte differentiation; and positive regulation of tyrosine phosphorylation of STAT protein. Acts upstream of or within B cell differentiation and receptor signaling pathway via JAK-STAT. Predicted to be located in extracellular space. Predicted to be part of CNTFR-CLCF1 complex and CRLF-CLCF1 complex. Predicted to be active in extracellular region. Is expressed in several structures, including alimentary system; central nervous system; lung; metanephros; and skeletal musculature. 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, Apr 2022]
Expression: Broad expression in spleen adult (RPKM 32.4), mammary gland adult (RPKM 16.1) and 15 other tissues See more
Orthologs: human all
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Genomic context

Location:: 19 A; 19 3.91 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	19	NC_000085.7 (4264479..4273548)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	19	NC_000085.6 (4214238..4223505)

Chromosome 19 - NC_000085.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

CLCF1 inhibits energy expenditure via suppressing brown fat thermogenesis.
Title: CLCF1 inhibits energy expenditure via suppressing brown fat thermogenesis.
Intrahepatic paracrine signaling by cardiotrophin-like cytokine factor 1 ameliorates diet-induced NASH in mice.
Title: Intrahepatic paracrine signaling by cardiotrophin-like cytokine factor 1 ameliorates diet-induced NASH in mice.
CLCF1 signaling restrains thermogenesis and disrupts metabolic homeostasis by inhibiting mitochondrial biogenesis in brown adipocytes.
Title: CLCF1 signaling restrains thermogenesis and disrupts metabolic homeostasis by inhibiting mitochondrial biogenesis in brown adipocytes.
Cardiotrophin-Like Cytokine Factor 1 Exhibits a Myeloid-Biased Hematopoietic-Stimulating Function.
Title: Cardiotrophin-Like Cytokine Factor 1 Exhibits a Myeloid-Biased Hematopoietic-Stimulating Function.
CLCF1binds mouse Mesenchymal stem cells, triggers STAT1 and -3 phosphorylation, inhibits the upregulation of master genes involved in the control of osteogenesis, and markedly prevents osteoblast generation and mineralization.
Title: Cardiotrophin-like cytokine (CLCF1) modulates mesenchymal stem cell osteoblastic differentiation.
Cardiotrophin-like cytokine factor 1 (CLCF1) and neuropoietin (NP) signalling and their roles in development, adulthood, cancer and degenerative disorders.
Title: Cardiotrophin-like cytokine factor 1 (CLCF1) and neuropoietin (NP) signalling and their roles in development, adulthood, cancer and degenerative disorders.
In this study, Clc knockout mice had decreased facial motility, did not suckle, died within 24 hours, and had 32% and 29% fewer motor neurons in the facial nucleus and lumbar ventral horn, respectively.
Title: Neonatal death in mice lacking cardiotrophin-like cytokine is associated with multifocal neuronal hypoplasia.
IL-6 (gp130) family cytokine members include CLC/NNT1/BSF3 and IL-27 [review]
Title: New IL-6 (gp130) family cytokine members, CLC/NNT1/BSF3 and IL-27.
CLC plays a role in astrocyte differentiation via STAT3 activation within the developing brain
Title: Cardiotrophin-like cytokine induces astrocyte differentiation of fetal neuroepithelial cells via activation of STAT3.
neurotrophin-1/B-cell stimulating factor 3(NNT-1/BSF-3) is expressed in pituitary folliculostellate TtT/GF cells and induced by PKC-, PKA-, and ERK1/2-dependent mechanisms
Title: Expression of novel neurotrophin-1/B-cell stimulating factor-3 (NNT-1/BSF-3) in murine pituitary folliculostellate TtT/GF cells: pituitary adenylate cyclase-activating polypeptide and vasoactive intestinal peptide-induced stimulation of NNT-1/BSF-3 is mediated by protein kinase A, protein kinase C, and extracellular-signal-regulated kinase1/2 pathways.

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Variation

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Alleles

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

Targeted (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

NoName (e-PCR)
- UniSTS:485272

Clcf1 (e-PCR), detects polymorphism
- UniSTS:496822

Readthrough Gm45928

Readthrough gene: Gm45928, Included gene: Pold4

Gene Ontology Provided by MGI

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
contributes_to ciliary neurotrophic factor receptor binding	TAS Traceable Author Statement more info	PubMed
enables cytokine activity	IBA Inferred from Biological aspect of Ancestor more info
enables cytokine activity	IDA Inferred from Direct Assay more info	PubMed
contributes_to cytokine activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within B cell differentiation	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within cell surface receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of motor neuron apoptotic process	NAS Non-traceable Author Statement more info	PubMed
involved_in negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron apoptotic process	NAS Non-traceable Author Statement more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of astrocyte differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of corticotropin-releasing hormone secretion	TAS Traceable Author Statement more info	PubMed
involved_in positive regulation of immunoglobulin production	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of isotype switching to IgE isotypes	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of type 2 immune response	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of tyrosine phosphorylation of STAT protein	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of tyrosine phosphorylation of STAT protein	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of tyrosine phosphorylation of STAT protein	ISO Inferred from Sequence Orthology more info
involved_in regulation of ERK1 and ERK2 cascade	TAS Traceable Author Statement more info	PubMed
involved_in regulation of inflammatory response	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	TAS Traceable Author Statement more info	PubMed

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
part_of CRLF-CLCF1 complex	TAS Traceable Author Statement more info	PubMed
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; neurotrophin-1/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)

NM_001310038.3 → NP_001296967.1 cardiotrophin-like cytokine factor 1 isoform 2 precursor

See identical proteins and their annotated locations for NP_001296967.1

Status: VALIDATED

Description

Transcript Variant: This variant (2) contains an alternate exon in the 5' region resulting in differences in the 5' UTR and translation initiation from a downstream start codon, compared to variant 1. It encodes isoform 2 which has a shorter N-terminus compared to isoform 1. Both variants 2 and 3 encode the same protein (isoform 2).

Source sequence(s)

AC140073

UniProtKB/TrEMBL

Q3TC09, Q3TM06

Conserved Domains (1) summary

cl21565
Location:46 → 202

LIF_OSM; LIF / OSM family
NM_001310039.2 → NP_001296968.1 cardiotrophin-like cytokine factor 1 isoform 2 precursor

See identical proteins and their annotated locations for NP_001296968.1

Status: VALIDATED

Description

Transcript Variant: This variant (3) contains an alternate 5' terminal exon resulting in differences in the 5' UTR and translation initiation from a downstream start codon, compared to variant 1. It encodes isoform 2 which has a shorter N-terminus compared to isoform 1. Both variants 2 and 3 encode the same protein (isoform 2).

Source sequence(s)

AC140073

UniProtKB/TrEMBL

Q3TC09, Q3TM06

Conserved Domains (1) summary

cl21565
Location:46 → 202

LIF_OSM; LIF / OSM family
NM_019952.6 → NP_064336.1 cardiotrophin-like cytokine factor 1 isoform 1 precursor

See identical proteins and their annotated locations for NP_064336.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1).

Source sequence(s)

AC140073

Consensus CDS

CCDS29423.1

UniProtKB/Swiss-Prot

Q3SXK2, Q9QZM3

UniProtKB/TrEMBL

Q3TC09

Related

ENSMUSP00000045562.7, ENSMUST00000046506.7

Conserved Domains (1) summary

cl21565
Location:56 → 212

LIF_OSM; LIF / OSM family