Variant report

Variant	rs556318
Chromosome Location	chr6:49237640-49237641
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs1738322	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1748805	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs471258	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs472168	1.00[AMR][1000 genomes]
rs473800	1.00[AMR][1000 genomes]
rs475833	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs476657	1.00[AMR][1000 genomes]
rs477529	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs478469	1.00[AMR][1000 genomes]
rs480061	1.00[AMR][1000 genomes]
rs482046	1.00[AMR][1000 genomes]
rs484612	1.00[AMR][1000 genomes]
rs486435	1.00[AMR][1000 genomes]
rs487363	1.00[AMR][1000 genomes]
rs488497	1.00[AMR][1000 genomes]
rs489459	1.00[AMR][1000 genomes]
rs491715	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs493691	1.00[AMR][1000 genomes]
rs494529	1.00[AMR][1000 genomes]
rs495233	1.00[AMR][1000 genomes]
rs497233	1.00[AMR][1000 genomes]
rs497390	1.00[AMR][1000 genomes]
rs498048	1.00[AMR][1000 genomes]
rs498218	1.00[AMR][1000 genomes]
rs498264	1.00[AMR][1000 genomes]
rs498367	1.00[AMR][1000 genomes]
rs498400	1.00[AMR][1000 genomes]
rs501968	1.00[AMR][1000 genomes]
rs502767	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs502868	1.00[AMR][1000 genomes]
rs504940	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs505273	1.00[AMR][1000 genomes]
rs506176	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs506228	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs507989	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs515439	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs515566	1.00[AMR][1000 genomes]
rs516988	1.00[AMR][1000 genomes]
rs517774	1.00[AMR][1000 genomes]
rs519217	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs519426	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs519734	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs520508	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs522061	1.00[AMR][1000 genomes]
rs523440	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs523897	1.00[AMR][1000 genomes]
rs524781	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs524822	1.00[AMR][1000 genomes]
rs525102	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs525892	1.00[AMR][1000 genomes]
rs529393	1.00[AMR][1000 genomes]
rs530710	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs531943	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs539366	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs540175	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs540374	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs541985	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs544714	0.81[YRI][hapmap]
rs546248	1.00[AMR][1000 genomes]
rs547267	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs547609	1.00[AMR][1000 genomes]
rs550330	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs550485	1.00[AMR][1000 genomes]
rs550645	1.00[AMR][1000 genomes]
rs552336	1.00[AMR][1000 genomes]
rs552350	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs552383	1.00[AMR][1000 genomes]
rs553567	1.00[AMR][1000 genomes]
rs554083	1.00[AMR][1000 genomes]
rs558669	1.00[AMR][1000 genomes]
rs559388	1.00[AMR][1000 genomes]
rs559706	1.00[AMR][1000 genomes]
rs560390	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs560700	1.00[AMR][1000 genomes]
rs561215	1.00[AMR][1000 genomes]
rs561296	1.00[AMR][1000 genomes]
rs562011	1.00[AMR][1000 genomes]
rs562138	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs563878	1.00[AMR][1000 genomes]
rs564151	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs565702	1.00[AMR][1000 genomes]
rs565793	1.00[AMR][1000 genomes]
rs567539	1.00[AMR][1000 genomes]
rs572782	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs574868	1.00[AMR][1000 genomes]
rs574970	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs575753	1.00[AMR][1000 genomes]
rs577075	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs577922	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs578848	1.00[AMR][1000 genomes]
rs579011	1.00[AMR][1000 genomes]
rs6933384	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949690	chr6:48595821-49289855	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2755862	chr6:49081541-49298041	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 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	chr6:49233000-49239800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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