Variant report

Variant	rs10409954
Chromosome Location	chr19:44689764-44689765
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:44688774..44691005-chr19:44695684..44698395,2	MCF-7	breast:

Extended variants
information (count: 84 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10153465	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10153499	0.92[ASN][1000 genomes]
rs10401758	1.00[CEU][hapmap]
rs10405281	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10406980	1.00[CEU][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10408004	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10409643	1.00[CEU][hapmap]
rs10409884	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10410283	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10410532	1.00[CEU][hapmap]
rs10412910	0.81[AMR][1000 genomes]
rs10415196	1.00[CEU][hapmap]
rs10415563	1.00[CEU][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10415664	0.86[ASN][1000 genomes]
rs10416230	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10416292	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10416493	1.00[CEU][hapmap]
rs10417178	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10418460	1.00[CEU][hapmap]
rs10420465	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10422555	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10422609	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10424371	1.00[CEU][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10425881	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10426314	0.81[AMR][1000 genomes]
rs1106562	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11140	0.81[AMR][1000 genomes]
rs11878679	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11878720	0.82[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11879588	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs11879843	0.88[ASN][1000 genomes]
rs1584	1.00[CEU][hapmap]
rs16959114	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16978665	1.00[CEU][hapmap]
rs16978738	0.88[ASN][1000 genomes]
rs16978794	0.98[ASN][1000 genomes]
rs16978836	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs16978910	1.00[CEU][hapmap]
rs16978921	1.00[CEU][hapmap]
rs1881748	0.98[ASN][1000 genomes]
rs2141524	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2141525	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2178342	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2232803	1.00[CEU][hapmap]
rs28422007	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3803932	0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3810137	0.81[AMR][1000 genomes]
rs4802212	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4802213	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4802215	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4803683	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4803685	1.00[CEU][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4803686	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4803688	1.00[CEU][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4803693	0.81[AMR][1000 genomes]
rs55732275	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs57418162	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs57451052	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs58358390	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs59576456	0.98[ASN][1000 genomes]
rs59774711	0.92[ASN][1000 genomes]
rs60379253	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs60747128	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs6509144	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6509147	1.00[CEU][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6509148	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7248797	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7249992	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7250439	1.00[CEU][hapmap]
rs7253796	1.00[CEU][hapmap]
rs7254034	0.98[ASN][1000 genomes]
rs7254458	0.81[AMR][1000 genomes]
rs7257833	1.00[CEU][hapmap]
rs7260367	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73564059	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs73564095	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs8107252	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs8108504	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8108908	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs8111388	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs922063	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs922064	0.81[AMR][1000 genomes]
rs9304639	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]

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	nsv833840	chr19:44520620-44715760	Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44682200-44711200	Weak transcription	Brain Cingulate Gyrus	brain
2	chr19:44682400-44704800	Weak transcription	Brain Germinal Matrix	brain

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