Variant report

Variant	rs7739399
Chromosome Location	chr6:54855538-54855539
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10485136	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10948880	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1115159	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs12525787	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12662124	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13208701	0.81[EUR][1000 genomes]
rs1393776	0.81[CEU][hapmap]
rs148109	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs1503134	0.82[EUR][1000 genomes]
rs1503136	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1503147	0.86[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap]
rs1910350	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2064432	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2179786	0.81[CHB][hapmap]
rs2816811	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs4141552	0.85[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs4588693	0.82[EUR][1000 genomes]
rs4712081	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4715492	0.82[EUR][1000 genomes]
rs6908170	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6908568	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6926997	0.85[CEU][hapmap]
rs6939778	0.87[ASN][1000 genomes]
rs72645372	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7453866	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs7746374	0.92[ASN][1000 genomes]
rs7764641	0.82[EUR][1000 genomes]
rs7765236	0.82[EUR][1000 genomes]
rs9296771	1.00[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs932452	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9357840	0.89[CHB][hapmap];0.86[JPT][hapmap]
rs9367597	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9367602	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9370332	0.89[CHB][hapmap];0.93[JPT][hapmap]
rs9370333	0.89[CHB][hapmap];0.93[JPT][hapmap]
rs9370345	0.81[CEU][hapmap]
rs9370350	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9370351	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9370352	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9382397	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9382398	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9382403	0.82[CEU][hapmap]
rs9382404	0.82[EUR][1000 genomes]
rs9382407	0.82[EUR][1000 genomes]
rs9382408	0.82[EUR][1000 genomes]
rs9382411	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9396006	0.90[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9396007	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9396011	0.82[EUR][1000 genomes]
rs9396013	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9396036	0.88[CHB][hapmap]
rs9475068	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9475069	0.87[ASN][1000 genomes]
rs9475081	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9475106	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9475107	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs960835	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs988913	0.81[CEU][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	nsv5309	chr6:54834971-54855729	Enhancers Active TSS Flanking Active TSS Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54847000-54856800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:54853000-54857000	Weak transcription	HMEC	breast
3	chr6:54853400-54858400	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr6:54854000-54856400	Weak transcription	Fetal Intestine Small	intestine
5	chr6:54855400-54855800	Enhancers	Pancreatic Islets	Pancreatic Islet

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