Variant report

Variant	rs13074105
Chromosome Location	chr3:138934384-138934385
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10804664	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935306	0.85[AMR][1000 genomes]
rs10935312	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11707723	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11712639	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11719269	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11719376	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11924028	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11927735	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11928890	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12632107	0.85[CEU][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes]
rs12632125	0.84[AMR][1000 genomes]
rs12633011	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12635153	0.83[ASN][1000 genomes]
rs12639039	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs13067012	0.84[AMR][1000 genomes]
rs13068617	0.84[AMR][1000 genomes]
rs13069247	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13069303	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13074693	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13075082	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13079289	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13079437	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13083364	0.84[AMR][1000 genomes]
rs13089589	0.84[AMR][1000 genomes]
rs13096665	0.86[EUR][1000 genomes]
rs13097708	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13097854	0.91[EUR][1000 genomes]
rs13100625	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1554563	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1554565	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17314607	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35781224	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4276214	0.86[EUR][1000 genomes]
rs4365652	0.84[AMR][1000 genomes]
rs4429660	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4521258	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4894383	0.86[AMR][1000 genomes]
rs4894384	0.84[AMR][1000 genomes]
rs4894397	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4894398	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894399	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4894402	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56729627	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs58316570	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs59690210	0.82[ASN][1000 genomes]
rs73868516	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs73868517	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs73868523	0.82[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7426421	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7615670	0.84[AMR][1000 genomes]
rs7623750	0.85[CEU][hapmap];1.00[GIH][hapmap];0.85[TSI][hapmap]
rs7637464	0.84[AMR][1000 genomes]
rs7639780	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs952389	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs955084	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs955085	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829736	chr3:138737352-138934758	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1005167	chr3:138854490-138988546	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536728	chr3:138854490-138988546	Enhancers Bivalent Enhancer Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs13074105	FOXL2	cis	parietal	SCAN
rs13074105	RASA2	cis	cerebellum	SCAN
rs13074105	ZBTB38	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:138928200-138936200	Weak transcription	K562	blood
2	chr3:138933400-138936200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:138934200-138934600	Enhancers	Ovary	ovary
4	chr3:138934200-138935600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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