Variant report

Variant	rs11713093
Chromosome Location	chr3:160664491-160664492
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs11711152	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs11718966	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs11916355	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11922296	0.85[JPT][hapmap]
rs13060718	0.90[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs13071999	0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13073059	0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1345156	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1348976	0.85[JPT][hapmap]
rs1374789	0.85[JPT][hapmap]
rs1374790	0.85[JPT][hapmap]
rs1374795	0.84[JPT][hapmap]
rs1447610	0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs1447615	0.85[JPT][hapmap]
rs1447622	0.89[JPT][hapmap];0.82[EUR][1000 genomes]
rs1562464	0.90[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16831563	0.83[EUR][1000 genomes]
rs1839016	0.82[EUR][1000 genomes]
rs1839018	0.84[JPT][hapmap]
rs1868105	0.89[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1868107	0.95[JPT][hapmap];0.82[EUR][1000 genomes]
rs2044571	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2889390	0.90[JPT][hapmap]
rs4679920	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs6441337	0.83[EUR][1000 genomes]
rs6441338	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs66872845	0.89[EUR][1000 genomes]
rs6768115	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs6774725	0.94[JPT][hapmap];0.82[EUR][1000 genomes]
rs6801330	0.84[JPT][hapmap]
rs6801444	0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs6806015	0.82[EUR][1000 genomes]
rs7624185	0.95[JPT][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7641892	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs935497	0.95[JPT][hapmap];0.83[EUR][1000 genomes]
rs964533	0.83[EUR][1000 genomes]
rs9812507	0.86[EUR][1000 genomes]
rs9822435	0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs9832109	0.86[EUR][1000 genomes]
rs9844267	0.95[JPT][hapmap];0.87[EUR][1000 genomes]
rs9845943	0.90[JPT][hapmap];0.91[EUR][1000 genomes]
rs9857482	0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9860537	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9871801	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9883566	0.84[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11713093	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL
rs11713093	SPTSSB	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160658800-160667400	Weak transcription	Thymus	Thymus
2	chr3:160659800-160666000	Weak transcription	Fetal Kidney	kidney
3	chr3:160663400-160666200	Weak transcription	Psoas Muscle	Psoas
4	chr3:160664000-160665800	Weak transcription	Liver	Liver

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