rs1558902

Chromosome : 16 , Position: 53769662

Most conditions are affected by anywhere from hundreds to millions of genetic variants (SNPs). A single SNP usually has a minor contribution to a person’s overall genetic risk for a certain condition. That is why you shouldn't consider or act on a SNP in isolation. Instead, we use SNPs to determine polygenic risk scores (PRSs), which are the basis of most health reports.

Reference Allele: T

Alternative Alleles: A

Associated Genes

FTO

RPGRIP1L

IRX5

AKTIP

RBL2

IRX3

Traits

Trait	Variant	PMID	Author (year)
Ankle spacing width	A	Unknown journal	UKB Neale v2 (2018)
Serum 25-Hydroxyvitamin D levels	A	Nat Commun	Revez JA (2020)
"Gonarthrosis,primary"	A	Unknown journal	FINNGEN_R5 (2021)
"Primary gonarthrosis, bilateral"	A	Unknown journal	FINNGEN_R5 (2021)
Alcohol consumption (drinks per week) (MTAG)	A	Nat Neurosci	Zhou H (2020)
BMI (adjusted for smoking behaviour)	A	Nat Commun	Justice AE (2017)
BMI (adjusted for smoking behaviour) [men]	A	Nat Commun	Justice AE (2017)
BMI (adjusted for smoking behaviour) [women]	A	Nat Commun	Justice AE (2017)
BMI in non-smokers	A	Nat Commun	Justice AE (2017)
BMI in non-smokers [men]	A	Nat Commun	Justice AE (2017)
BMI in non-smokers [women]	A	Nat Commun	Justice AE (2017)
BMI in smokers	A	Nat Commun	Justice AE (2017)
BMI in smokers [men]	A	Nat Commun	Justice AE (2017)
BMI in smokers [women]	A	Nat Commun	Justice AE (2017)
Body fat percentage	A	Nat Commun	Lu Y (2016)
Body fat percentage [European men]	A	Nat Commun	Lu Y (2016)
Body fat percentage [European women]	A	Nat Commun	Lu Y (2016)
Body fat percentage [European]	A	Nat Commun	Lu Y (2016)
Body fat percentage [men]	A	Nat Commun	Lu Y (2016)
Body fat percentage [women]	A	Nat Commun	Lu Y (2016)
Body mass index	A	Am J Hum Genet	Tachmazidou I (2017)
Body mass index (age interaction)	A	Int J Epidemiol	Warrington NM (2015)
Body mass index (joint analysis main effects and smoking interaction)	A	Nat Commun	Justice AE (2017)
Body mass index (joint analysis main effects and smoking interaction) [men]	A	Nat Commun	Justice AE (2017)
Body mass index (joint analysis main effects and smoking interaction) [women]	A	Nat Commun	Justice AE (2017)
Body mass index [age 1-17]	A	Int J Epidemiol	Warrington NM (2015)
Body mass index [age 8]	A	Int J Epidemiol	Warrington NM (2015)
C-reactive protein levels	A	Am J Hum Genet	Ligthart S (2018)
C-reactive protein levels or HDL-cholesterol levels (pleiotropy)	A	BMC Genomics	Ligthart S (2016)
Glycated hemoglobin levels	A	PLoS Med	Wheeler E (2017)
Gonarthrosis	A	Unknown journal	FINNGEN_R5 (2021)
Gonarthrosis [arthrosis of knee](FG)	A	Unknown journal	FINNGEN_R5 (2021)
Height adjusted BMI	A	Obesity (Silver Spring)	Stergiakouli E (2014)
Hip circumference	A	Am J Hum Genet	Tachmazidou I (2017)
Menarche (age at onset)	A	Nat Genet	Pickrell JK (2016)
Obesity	A	Unknown journal	FINNGEN_R5 (2021)
Obesity (early onset extreme)	A	PLoS Genet	Scherag A (2010)
Obesity [Overweight]	A	Nat Genet	Berndt SI (2013)
Obesity and other hyperalimentation	A	Unknown journal	FINNGEN_R5 (2021)
Other nutritional deficiencies	A	Unknown journal	FINNGEN_R5 (2021)
Red cell distribution width	A	Am J Hum Genet	Kichaev G (2018)
Type 2 diabetes	A	Nat Genet	Mahajan A (2018)
Type 2 diabetes (adjusted for BMI)	A	Nat Genet	Mahajan A (2018)
Visceral adipose tissue volume	A	Elife	Liu Y (2021)
Waist circumference	A	Am J Hum Genet	Tachmazidou I (2017)
Waist circumference [EA, men]	A	Nature	Shungin D (2015)
Waist circumference [EA, women]	A	Nature	Shungin D (2015)
Waist circumference [EA]	A	Nature	Shungin D (2015)
Weight	A	Am J Hum Genet	Tachmazidou I (2017)

Summary

[PMID 20075932] Association of gene polymorphism of the fat-mass and obesity-associated gene with insulin resistance in Japanese

[PMID 21443588] Association between the FTO gene and overweight in Japanese children and adolescents

[PMID 21796137] Association of variations in the FTO, SCG3 and MTMR9 genes with metabolic syndrome in a Japanese population

[PMID 22235250] Quantile-specific penetrance of genes affecting lipoproteins, adiposity and height

[PMID 22589738] Genome-Wide Association for Abdominal Subcutaneous and Visceral Adipose Reveals a Novel Locus for Visceral Fat in Women

[PMID 18379722] Variations in the FTO gene are associated with severe obesity in the Japanese.

[PMID 20703240] Polymorphisms in NRXN3, TFAP2B, MSRA, LYPLAL1, FTO and MC4R and their effect on visceral fat area in the Japanese population.

[PMID 22041983] Recapitulation of genome-wide association studies on body mass index in the Korean population.

[PMID 22222230] FTO gene polymorphisms and platelet counts in a general Japanese population.

[PMID 22504289] FTO, Abdominal Adiposity, Fasting Hyperglycemia Associated with Elevated HbA1c in Japanese Middle-Aged Women.

[PMID 23254338] FTO First Intron rs1558902 Variant and Platelets Count in White Middle-aged Women: Prague Pre and Post Menopausal Females (3PMFs) Study

[PMID 24084939] A common biological basis of obesity and nicotine addiction

[PMID 24106974] Association between fat mass and obesity-associated (FTO) gene and hip fracture susceptibility

[PMID 22891219] FTO genotype and 2-year change in body composition and fat distribution in response to weight-loss diets: the POUNDS LOST Trial.

[PMID 23471855] The genetics of childhood obesity and interaction with dietary macronutrients.

[PMID 24911064] Association of FTO Polymorphisms with Obesity and Metabolic Parameters in Han Chinese Adolescents

[PMID 24983943] Effects of BMI, Fat Mass, and Lean Mass on Asthma in Childhood: A Mendelian Randomization Study

[PMID 25091360] Fat-mass and obesity-associated gene variant and changes of body mass index from ages 3 to 13 years

[PMID 25761503] Dietary Fat Modifies the Effects of FTO Genotype on Changes in Insulin Sensitivity

More Information

rs1558902 is a SNP in the FTO gene. It is associated with a higher BMI (Body mass index) than normal.

The ''A'' allele was substantially less common in young and middle aged Japanese women (18 and 17% respectively), than in the European population (45%).

The strong effect of genotype AA on BMI (body-mass index) was evident at age 12, 15, 20 and 50 years whereas there was no effect on birth weight.This variant was associated with higher odds of overweight (BMI ≥25 kg/m(2)) in young (OR 1.73) and middle-aged women (OR 1.73), abdominal fat accumulation (abdominal girth ≥90 cm, OR 1.73) and fasting hyperglycemia (≥100 mg/dL) (OR 1.87) in middle-aged mothers [R].

Body mass index (BMI) was higher in the TA+AA genotypes than in wild TT genotypes (P = 0.038) [R].

The ''A'' allele was associated with an increase of C-reactive protein (CRP) and a decrease in high-density lipoprotein (HDL) cholesterol [R].

Population Alleles Frequency

ethhicity	frequency
African/African-American	0.0999
Latino/Admixed American	0.23
Ashkenazi Jewish	0.5207
East Asian	0.1317
European	0.4311
Other (population not assigned)	0.3715

Frequently Asked Questions

Why Are Alleles for This SNP Different Elsewhere? Major vs. Reference Allele Is My Variant Good or Bad? SNP vs. Mutation

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