Variant report

Variant	rs515566
Chromosome Location	chr6:49323937-49323938
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:115)

rs_ID	r²[population]
rs16878901	0.95[AFR][1000 genomes]
rs16878906	0.95[AFR][1000 genomes]
rs1738322	1.00[AMR][1000 genomes]
rs1748805	1.00[AMR][1000 genomes]
rs471258	1.00[AMR][1000 genomes]
rs472168	1.00[AMR][1000 genomes]
rs473800	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs475833	1.00[AMR][1000 genomes]
rs476131	0.88[YRI][hapmap]
rs476657	1.00[AMR][1000 genomes]
rs477051	1.00[YRI][hapmap]
rs477529	1.00[AMR][1000 genomes]
rs478469	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs478991	0.89[YRI][hapmap]
rs480061	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs482046	1.00[AMR][1000 genomes]
rs483257	0.95[AFR][1000 genomes]
rs484612	1.00[AMR][1000 genomes]
rs485743	0.95[AFR][1000 genomes]
rs486435	1.00[AMR][1000 genomes]
rs487363	1.00[AMR][1000 genomes]
rs488497	1.00[AMR][1000 genomes]
rs489459	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs491715	1.00[AMR][1000 genomes]
rs491967	0.95[AFR][1000 genomes]
rs493691	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs494529	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs495233	1.00[AMR][1000 genomes]
rs496864	0.80[YRI][hapmap]
rs497233	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs497390	1.00[AMR][1000 genomes]
rs498048	1.00[AMR][1000 genomes]
rs498218	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs498264	1.00[AMR][1000 genomes]
rs498367	1.00[AMR][1000 genomes]
rs498400	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs501968	1.00[AMR][1000 genomes]
rs502767	1.00[AMR][1000 genomes]
rs502868	1.00[AMR][1000 genomes]
rs504940	1.00[AMR][1000 genomes]
rs505273	1.00[AMR][1000 genomes]
rs506176	1.00[AMR][1000 genomes]
rs506228	1.00[AMR][1000 genomes]
rs507989	1.00[AMR][1000 genomes]
rs510455	0.89[YRI][hapmap]
rs513031	0.89[YRI][hapmap]
rs514138	0.89[YRI][hapmap]
rs515439	1.00[AMR][1000 genomes]
rs516988	1.00[AMR][1000 genomes]
rs517774	1.00[AMR][1000 genomes]
rs519217	1.00[AMR][1000 genomes]
rs519426	1.00[AMR][1000 genomes]
rs519734	1.00[AMR][1000 genomes]
rs520470	0.89[YRI][hapmap]
rs520508	1.00[AMR][1000 genomes]
rs522061	1.00[AMR][1000 genomes]
rs523440	1.00[AMR][1000 genomes]
rs523897	1.00[AMR][1000 genomes]
rs524781	1.00[AMR][1000 genomes]
rs524822	1.00[AMR][1000 genomes]
rs525102	1.00[AMR][1000 genomes]
rs525892	1.00[AMR][1000 genomes]
rs529393	1.00[AMR][1000 genomes]
rs530710	1.00[AMR][1000 genomes]
rs531943	1.00[AMR][1000 genomes]
rs534565	0.93[AFR][1000 genomes]
rs539366	1.00[AMR][1000 genomes]
rs539427	0.89[YRI][hapmap]
rs539659	1.00[YRI][hapmap]
rs539754	0.89[YRI][hapmap]
rs540175	1.00[AMR][1000 genomes]
rs540374	1.00[AMR][1000 genomes]
rs541985	1.00[AMR][1000 genomes]
rs544263	0.89[YRI][hapmap]
rs546248	1.00[AMR][1000 genomes]
rs547267	1.00[AMR][1000 genomes]
rs547609	1.00[AMR][1000 genomes]
rs550330	1.00[AMR][1000 genomes]
rs550485	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs550645	1.00[AMR][1000 genomes]
rs552336	1.00[AMR][1000 genomes]
rs552350	1.00[AMR][1000 genomes]
rs552383	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs553567	1.00[AMR][1000 genomes]
rs554083	1.00[AMR][1000 genomes]
rs556318	1.00[AMR][1000 genomes]
rs558669	1.00[AMR][1000 genomes]
rs559388	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs559706	1.00[AMR][1000 genomes]
rs560390	1.00[AMR][1000 genomes]
rs560700	1.00[AMR][1000 genomes]
rs561215	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs561296	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs562011	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs562138	1.00[AMR][1000 genomes]
rs563111	0.89[YRI][hapmap]
rs563878	1.00[AMR][1000 genomes]
rs564151	1.00[AMR][1000 genomes]
rs565702	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs565793	1.00[AMR][1000 genomes]
rs567539	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs568143	0.89[YRI][hapmap]
rs571802	0.95[AFR][1000 genomes]
rs572782	1.00[AMR][1000 genomes]
rs574868	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs574970	1.00[AMR][1000 genomes]
rs575461	0.89[YRI][hapmap]
rs575753	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs577075	1.00[AMR][1000 genomes]
rs577922	1.00[AMR][1000 genomes]
rs578848	1.00[AMR][1000 genomes]
rs579011	1.00[AMR][1000 genomes]
rs59302833	0.93[AFR][1000 genomes]
rs6900147	0.93[AFR][1000 genomes]
rs6933384	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024959	chr6:49290141-49652124	Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1021136	chr6:49295037-49631278	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv915806	chr6:49313295-49430422	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv965724	chr6:49316485-49326297	Weak transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
5	nsv462943	chr6:49319025-49376924	Weak transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv603080	chr6:49319025-49376924	Enhancers Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:49310800-49328000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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