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Clcf1 Gene Detail
Summary
  • Symbol
    Clcf1
  • Name
    cardiotrophin-like cytokine factor 1
  • Synonyms
    Bsf3, CLC, NNT-1/BSF-3
  • Feature Type
    protein coding gene
  • IDs
    MGI:1930088
    NCBI Gene: 56708
  • Alliance
    genome feature page
  • Transcription Start Sites
    2 TSS
Location &
Maps
more
  • Sequence Map
    Chr19:4264479-4273548 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 19, 3.91 cM, cytoband A
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    157 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_1930088
 protein coding gene Chr19:4264292-4273548 (+)
129S1/SvImJ ENSMUSG00200051657
 protein coding gene Chr19:1024831-1034083 (+)
A/J ENSMUSG00195051917
 protein coding gene Chr19:1416058-1425327 (+)
AKR/J ENSMUSG00220046582
 protein coding gene Chr19:1188986-1198262 (+)
BALB/cJ ENSMUSG00180046793
 protein coding gene Chr19:1790796-1800064 (+)
C3H/HeJ ENSMUSG00175009742
 protein coding gene Chr19:1035531-1044797 (+)
C57BL/6NJ ENSMUSG00215043841
 protein coding gene Chr19:1263143-1272400 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0022500
 protein coding gene Chr19:959466-969583 (+)
CAST/EiJ ENSTCUG00005027867
 protein coding gene Chr19:1169954-1179441 (+)
CBA/J ENSMUSG00210034572
 protein coding gene Chr19:1035860-1045130 (+)
DBA/2J ENSMUSG00185041454
 protein coding gene Chr19:1412181-1421462 (+)
FVB/NJ ENSMUSG00205050760
 protein coding gene Chr19:1413267-1422509 (+)
JF1/MsJ ENSUMUG00000053812
 protein coding gene Chr19:1397524-1406775 (+)
LP/J ENSMUSG00230052064
 protein coding gene Chr19:2330989-2340242 (+)
NOD/ShiLtJ ENSMUSG00190030601
 protein coding gene Chr19:957133-966407 (+)
NZO/HlLtJ ENSMUSG00225025814
 protein coding gene Chr19:6039840-6049092 (+)
PWK/PhJ ENSLUMG00010005631
 protein coding gene Chr19:1174265-1183512 (+)
SPRET/EiJ ENSMSPG00010040029
 protein coding gene Chr19:1154239-1163546 (+)
WSB/EiJ ENSIUOG00005046155
 protein coding gene Chr19:1041226-1050485 (+)



Homology
more
  • Human Ortholog
    CLCF1, cardiotrophin like cytokine factor 1
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    CLCF1, cardiotrophin like cytokine factor 1
  • Synonyms
    BSF-3, BSF3, CISS2, CLC, NNT-1, NNT1, NR6
  • Links
    NCBI Gene ID: 23529
    UniProt: Q9UBD9

  • Chr Location
    11q13.2; chr11:67364168-67374177 (-)  GRCh38
Human Diseases
more
  • Diseases
    1 with human CLCF1 associations

Human Disease Mouse Models
      
IDs
Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    11 phenotypes from 3 alleles in 3 genetic backgrounds
    15 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Mice homozygous for a knock-out allele exhibit postnatal lethality associated with a failure to suckle and decreased facial and spinal motor neurons.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    61
  • GO References
    13
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    641
  • Tissues
    37
  • cDNA Data
    14
  • Literature Summary
    8
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 56708 NCBI Gene Model | MGI Sequence Detail 9070 C57BL/6J ±  kb
    transcript NM_001310039 RefSeq | MGI Sequence Detail 1796 C57BL/6  
    polypeptide Q9QZM3 UniProt | EBI | MGI Sequence Detail 225 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 17
      cDNA 14
      Primer pair 3

      Microarray probesets 5
    References
    more
    • Summaries
      All 58
      Developmental Gene Expression 8
      Gene Ontology 13
      Phenotypes 15
    • Earliest
      J:57927 Senaldi G, et al., Novel neurotrophin-1/B cell-stimulating factor-3: a cytokine of the IL-6 family. Proc Natl Acad Sci U S A. 1999 Sep 28;96(20):11458-63
    • Latest
      J:372695 Laplante V, et al., CLCF1 promotes IL12Rbeta2 proteolysis and limits Th1 differentiation. Cytokine. 2025 Oct;194:156989
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/15/2026
    MGI 6.29     		The Jackson Laboratory