Variant report

Variant	rs6728740
Chromosome Location	chr2:63157767-63157768
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:63153391..63155926-chr2:63157542..63159626,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10176805	1.00[EUR][1000 genomes]
rs10180262	1.00[EUR][1000 genomes]
rs10187907	1.00[EUR][1000 genomes]
rs10199938	1.00[EUR][1000 genomes]
rs10203623	1.00[EUR][1000 genomes]
rs10203845	1.00[EUR][1000 genomes]
rs11125951	1.00[EUR][1000 genomes]
rs13402830	1.00[EUR][1000 genomes]
rs13403570	1.00[EUR][1000 genomes]
rs13408152	1.00[EUR][1000 genomes]
rs13408991	1.00[EUR][1000 genomes]
rs13419820	1.00[EUR][1000 genomes]
rs13423930	1.00[EUR][1000 genomes]
rs13424984	1.00[EUR][1000 genomes]
rs13426053	1.00[EUR][1000 genomes]
rs13432479	1.00[EUR][1000 genomes]
rs55650545	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56738177	0.83[AMR][1000 genomes]
rs57002163	1.00[EUR][1000 genomes]
rs57127049	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57320842	1.00[EUR][1000 genomes]
rs58171425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59234039	1.00[EUR][1000 genomes]
rs59831223	1.00[EUR][1000 genomes]
rs61378194	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6727408	1.00[EUR][1000 genomes]
rs6732313	1.00[EUR][1000 genomes]
rs6732451	1.00[EUR][1000 genomes]
rs6754557	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72888969	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72890504	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72890505	1.00[EUR][1000 genomes]
rs72890506	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7598412	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7599037	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[EUR][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	nsv535767	chr2:62461582-63413596	Bivalent Enhancer Strong transcription Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	esv3417336	chr2:62957866-63749654	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv428041	chr2:63027947-63206574	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv1006848	chr2:63061816-63631407	Weak transcription Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	esv2756598	chr2:63085848-63491438	Strong transcription Bivalent/Poised TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	esv3340700	chr2:63127412-63534998	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:63122800-63166600	Weak transcription	HMEC	breast
2	chr2:63142400-63190800	Weak transcription	Brain Angular Gyrus	brain
3	chr2:63150400-63161400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:63150600-63176000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr2:63151200-63161600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr2:63151200-63161600	Weak transcription	NHDF-Ad	bronchial
7	chr2:63151200-63166000	Weak transcription	Liver	Liver
8	chr2:63151200-63166800	Weak transcription	NHEK	skin
9	chr2:63151200-63167200	Weak transcription	HSMM	muscle
10	chr2:63151200-63171200	Weak transcription	Ovary	ovary
11	chr2:63151200-63175600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr2:63151200-63182800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr2:63151400-63159200	Weak transcription	Stomach Smooth Muscle	stomach
14	chr2:63151400-63166400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr2:63151400-63166600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr2:63151400-63166800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr2:63151400-63169600	Weak transcription	A549	lung
18	chr2:63151400-63171400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr2:63151400-63194200	Weak transcription	Esophagus	oesophagus
20	chr2:63151400-63194200	Weak transcription	Fetal Brain Male	brain
21	chr2:63151400-63200800	Weak transcription	Fetal Stomach	stomach
22	chr2:63151400-63208800	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr2:63151400-63272200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr2:63152000-63165000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:63152200-63165000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr2:63152200-63169200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr2:63152200-63175600	Weak transcription	Primary T cells from cord blood	blood
28	chr2:63152600-63160400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr2:63154000-63162000	Strong transcription	HepG2	liver
30	chr2:63154400-63209000	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr2:63155400-63209000	Weak transcription	Psoas Muscle	Psoas
32	chr2:63157400-63158800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr2:63157400-63175600	Weak transcription	Left Ventricle	heart
34	chr2:63157400-63188800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr2:63157400-63207400	Weak transcription	Pancreas	Pancrea

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