Variant report

Variant	rs1396889
Chromosome Location	chr11:34794298-34794299
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10466455	0.99[ASN][1000 genomes]
rs10742325	0.90[ASN][1000 genomes]
rs10742326	0.89[ASN][1000 genomes]
rs10768093	0.82[ASN][1000 genomes]
rs10768094	0.99[ASN][1000 genomes]
rs10768097	0.99[ASN][1000 genomes]
rs10768099	0.96[ASN][1000 genomes]
rs10768100	0.96[ASN][1000 genomes]
rs10836290	0.82[ASN][1000 genomes]
rs10836291	0.82[ASN][1000 genomes]
rs10836292	0.82[ASN][1000 genomes]
rs10836294	0.82[ASN][1000 genomes]
rs10836295	0.97[ASN][1000 genomes]
rs10836300	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10836302	0.99[ASN][1000 genomes]
rs10836303	0.99[ASN][1000 genomes]
rs10836304	0.99[ASN][1000 genomes]
rs10836306	0.96[ASN][1000 genomes]
rs10836307	0.96[ASN][1000 genomes]
rs10836310	0.90[ASN][1000 genomes]
rs10836311	0.90[ASN][1000 genomes]
rs10836312	0.90[ASN][1000 genomes]
rs10836314	0.87[EUR][1000 genomes]
rs11032835	0.81[ASN][1000 genomes]
rs11032838	0.82[ASN][1000 genomes]
rs11032840	0.99[ASN][1000 genomes]
rs11032848	0.96[ASN][1000 genomes]
rs11032849	0.95[ASN][1000 genomes]
rs11032851	0.84[ASN][1000 genomes]
rs11032852	0.99[ASN][1000 genomes]
rs11032858	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11032860	0.96[ASN][1000 genomes]
rs11032865	0.84[ASN][1000 genomes]
rs11032866	0.91[ASN][1000 genomes]
rs11032867	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11032868	0.91[ASN][1000 genomes]
rs11032870	0.91[ASN][1000 genomes]
rs11032872	0.90[ASN][1000 genomes]
rs11032874	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1113588	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11499809	0.99[ASN][1000 genomes]
rs12277584	0.80[ASN][1000 genomes]
rs12280698	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12286940	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs12418978	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1396885	0.91[ASN][1000 genomes]
rs1396887	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1396888	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1396890	0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1509666	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1509667	0.99[ASN][1000 genomes]
rs1509668	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1588354	0.90[ASN][1000 genomes]
rs1588355	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1605880	0.99[ASN][1000 genomes]
rs2116086	0.87[EUR][1000 genomes]
rs2136508	0.96[ASN][1000 genomes]
rs2136509	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2421740	0.96[ASN][1000 genomes]
rs34454415	0.80[ASN][1000 genomes]
rs3980643	0.96[ASN][1000 genomes]
rs7112043	0.99[ASN][1000 genomes]
rs7116210	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7122506	0.97[ASN][1000 genomes]
rs7124685	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7124826	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7924717	0.81[ASN][1000 genomes]
rs7927270	0.81[ASN][1000 genomes]
rs7932115	0.87[EUR][1000 genomes]
rs7933927	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7935860	0.82[ASN][1000 genomes]
rs7937525	0.82[ASN][1000 genomes]
rs7939918	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7940805	0.82[ASN][1000 genomes]
rs7942593	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7942701	0.82[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs906902	0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832117	chr11:34639008-34831199	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv869812	chr11:34648088-34810956	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv832118	chr11:34743123-34903951	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv897214	chr11:34764251-34821948	Weak transcription Bivalent Enhancer Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:34787600-34805600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr11:34792200-34811000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr11:34793400-34796200	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr11:34794000-34794400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr11:34794000-34797200	Enhancers	Adipose Nuclei	Adipose

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