Variant report

Variant	rs16878901
Chromosome Location	chr6:49190231-49190232
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs16878788	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16878906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1738322	0.80[AFR][1000 genomes]
rs1748805	0.80[AFR][1000 genomes]
rs471258	0.80[AFR][1000 genomes]
rs472168	0.80[AFR][1000 genomes]
rs473800	0.91[AFR][1000 genomes]
rs476131	0.80[YRI][hapmap]
rs477051	1.00[YRI][hapmap]
rs477529	0.80[AFR][1000 genomes]
rs478469	0.91[AFR][1000 genomes]
rs478991	0.83[YRI][hapmap]
rs480061	1.00[AFR][1000 genomes]
rs482046	0.84[AFR][1000 genomes]
rs483257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs485743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs488497	0.80[AFR][1000 genomes]
rs489459	0.98[AFR][1000 genomes]
rs491715	0.84[AFR][1000 genomes]
rs491967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs493691	0.82[AFR][1000 genomes]
rs494529	1.00[AFR][1000 genomes]
rs495233	0.80[AFR][1000 genomes]
rs496080	0.80[AFR][1000 genomes]
rs497233	0.93[AFR][1000 genomes]
rs497390	0.80[AFR][1000 genomes]
rs498048	0.80[AFR][1000 genomes]
rs498218	0.93[AFR][1000 genomes]
rs498400	0.98[AFR][1000 genomes]
rs501968	0.80[AFR][1000 genomes]
rs502767	0.80[AFR][1000 genomes]
rs506176	0.80[AFR][1000 genomes]
rs506228	0.80[AFR][1000 genomes]
rs507989	0.80[AFR][1000 genomes]
rs508223	1.00[AMR][1000 genomes]
rs510455	0.83[YRI][hapmap]
rs513031	0.83[YRI][hapmap]
rs514138	0.83[YRI][hapmap]
rs515439	0.80[AFR][1000 genomes]
rs515566	0.95[AFR][1000 genomes]
rs517774	0.80[AFR][1000 genomes]
rs520470	0.83[YRI][hapmap]
rs520508	0.82[AFR][1000 genomes]
rs522061	0.80[AFR][1000 genomes]
rs523440	0.82[AFR][1000 genomes]
rs524781	0.80[AFR][1000 genomes]
rs524822	0.80[AFR][1000 genomes]
rs525102	0.80[AFR][1000 genomes]
rs525892	0.80[AFR][1000 genomes]
rs526635	0.80[AFR][1000 genomes]
rs530710	0.80[AFR][1000 genomes]
rs531943	0.82[AFR][1000 genomes]
rs534565	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs534716	1.00[AMR][1000 genomes]
rs539366	0.80[AFR][1000 genomes]
rs539427	0.83[YRI][hapmap]
rs539659	1.00[YRI][hapmap]
rs539754	0.83[YRI][hapmap]
rs540175	0.84[AFR][1000 genomes]
rs540374	0.84[AFR][1000 genomes]
rs541985	0.84[AFR][1000 genomes]
rs544263	0.83[YRI][hapmap]
rs547267	0.80[AFR][1000 genomes]
rs550485	0.91[AFR][1000 genomes]
rs550645	0.80[AFR][1000 genomes]
rs552350	0.80[AFR][1000 genomes]
rs552383	0.91[AFR][1000 genomes]
rs553567	0.80[AFR][1000 genomes]
rs554083	0.80[AFR][1000 genomes]
rs559196	1.00[AMR][1000 genomes]
rs559388	0.91[AFR][1000 genomes]
rs560390	0.82[AFR][1000 genomes]
rs561215	1.00[AFR][1000 genomes]
rs561296	0.91[AFR][1000 genomes]
rs562011	0.86[AFR][1000 genomes]
rs562138	0.80[AFR][1000 genomes]
rs563111	0.83[YRI][hapmap]
rs563878	0.80[AFR][1000 genomes]
rs564151	0.82[AFR][1000 genomes]
rs565702	0.93[AFR][1000 genomes]
rs565793	0.84[AFR][1000 genomes]
rs567539	0.91[AFR][1000 genomes]
rs568143	0.83[YRI][hapmap]
rs571802	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs572782	0.84[AFR][1000 genomes]
rs574868	1.00[AFR][1000 genomes]
rs574970	0.80[AFR][1000 genomes]
rs575461	0.83[YRI][hapmap]
rs575753	0.91[AFR][1000 genomes]
rs577075	0.80[AFR][1000 genomes]
rs577922	0.80[AFR][1000 genomes]
rs578848	0.80[AFR][1000 genomes]
rs579011	0.80[AFR][1000 genomes]
rs59302833	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6900147	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938508	0.86[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	chr6:49186600-49205600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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