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6 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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C17orf99
chromosome 17 open reading frame 99
Chromosome 17 · 17q25.3
NCBI Gene: 100141515Ensembl: ENSG00000187997.12HGNC: HGNC:34490UniProt: Q6UX52
10PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
GO:0005615mature B cell differentiation involved in immune responseimmune responsecell surface receptor signaling pathwayAbnormality of the skeletal systemrheumatoid arthritisSepsissystemic scleroderma
✦AI Summary

C17orf99 encodes interleukin-40 (IL-40), a novel 27-kDa B cell-associated cytokine involved in humoral immune regulation 1. IL-40 is expressed in bone marrow, fetal liver, and peripheral B cells upon activation, with expression further induced in the mammary gland during lactation 1. The cytokine plays a critical role in IgA production and mucosal immunity; C17orf99-deficient mice exhibit reduced serum and gut IgA levels, smaller Peyer's patches, and altered microbiome composition 1. Beyond immune homeostasis, IL-40 has emerged as a pathogenic mediator in inflammatory diseases. Serum IL-40 levels are significantly elevated in rheumatoid arthritis (RA) patients, correlating with disease activity, autoantibodies (rheumatoid factor and anti-CCP), and neutrophil extracellular trap markers 2. IL-40 decreases following B cell-depleting rituximab therapy but not TNF inhibition, suggesting B cell-dependent production 2. In osteoarthritis, IL-40 accumulates in synovial fluid and cartilage, promoting chondrocyte pro-inflammatory cytokine secretion and matrix metalloproteinase expression 3. Genetic studies identify the rs2004339 A/G intergenic variant as associated with increased RA risk, particularly in women 4. Additionally, C17orf99 mRNA is downregulated but hypermethylated in acute myeloid leukemia patients, with the rs2004339 AA genotype associated with increased AML susceptibility 5. These findings indicate IL-40 functions in both normal B cell immunity and pathogenic inflammatory responses across multiple diseases.

Sources cited
1
C17orf99 encodes IL-40, a novel B cell-associated cytokine; structure, expression patterns, role in IgA production and mucosal immunity
PMID: 28978694
2
IL-40 is upregulated in RA synovial tissue and serum, correlates with autoantibodies and disease activity, decreases after rituximab therapy
PMID: 34745117
3
IL-40 accumulates in osteoarthritis cartilage and synovial fluid, promotes chondrocyte inflammatory cytokine and MMP secretion
PMID: 39080724
4
rs2004339 A/G variant of C17orf99 associated with increased RA risk and IL-40 serum levels
PMID: 37951185
5
C17orf99 mRNA downregulation and DNA hypermethylation in AML patients; rs2004339 AA genotype associated with AML susceptibility
PMID: 38286266
Disease Associationsⓘ20
Abnormality of the skeletal systemOpen Targets
0.18Weak
rheumatoid arthritisOpen Targets
0.11Weak
SepsisOpen Targets
0.08Suggestive
systemic sclerodermaOpen Targets
0.07Suggestive
peeling skin syndromeOpen Targets
0.07Suggestive
generalized anxiety disorderOpen Targets
0.06Suggestive
systemic lupus erythematosusOpen Targets
0.05Suggestive
microphthalmia with limb anomaliesOpen Targets
0.05Suggestive
Mungan syndromeOpen Targets
0.04Suggestive
enthesitis-related juvenile idiopathic arthritisOpen Targets
0.04Suggestive
gingivitisOpen Targets
0.04Suggestive
myeloid sarcomaOpen Targets
0.04Suggestive
lymphomaOpen Targets
0.04Suggestive
osteosarcomaOpen Targets
0.03Suggestive
male reproductive system diseaseOpen Targets
0.03Suggestive
type 2 diabetes mellitusOpen Targets
0.03Suggestive
periodontitisOpen Targets
0.02Suggestive
infectious diseaseOpen Targets
0.02Suggestive
corneal dystrophyOpen Targets
0.02Suggestive
acute myeloid leukemiaOpen Targets
0.02Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
MS4A2Shared pathway100%IGSF6Shared pathway100%FCRL4Shared pathway100%FCRLAShared pathway100%FCRL6Shared pathway100%ASGR2Shared pathway67%
Tissue Expression6 tissues
Bone Marrow
100%
Liver
7%
Ovary
5%
Lung
4%
Brain
3%
Heart
0%
Gene Interaction Network
Click a node to explore
C17orf99MS4A2IGSF6FCRL4FCRLAFCRL6ASGR2
PROTEIN STRUCTURE
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AlphaFoldAI-predicted · UniProt Q6UX52
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
1.15LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.78 [0.54–1.15]
RankingsWhere C17orf99 stands among ~20K protein-coding genes
  • #17,004of 20,598
    Most Researched10
  • #11,994of 17,882
    Most Constrained (LOEUF)1.15
Genes detectedC17orf99
Sources retrieved6 papers
Response time—
📄 Sources
6▼
1
Identification of IL-40, a Novel B Cell-Associated Cytokine.
PMID: 28978694
J Immunol · 2017
1.00
2
Molecular landscape of the interleukin-40 encoding gene, C17orf99, in patients with acute myeloid leukemia.
PMID: 38286266
Gene · 2024
0.83
3
IL40: A Newly Described Cytokine With Conflicting Measurements and Detection Variability-Are There Different Forms?
PMID: 41795587
Scand J Immunol · 2026
0.67
4
IL-40 is up-regulated in the synovial fluid and cartilage of osteoarthritis patients and contributes to the alteration of chondrocytes phenotype in vitro.
PMID: 39080724
Arthritis Res Ther · 2024
0.50
5
A novel intergenic variant, rs2004339 A/G, of the gene encoding interleukin-40, C17orf99, is associated with risk of rheumatoid arthritis in Iraqi women.
PMID: 37951185
Mol Immunol · 2023
0.33