Variant report

Variant	rs6909954
Chromosome Location	chr6:128447874-128447875
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	chr6:128445911..128447759-chr6:128447773..128449650,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10872329	0.80[EUR][1000 genomes]
rs11965115	0.80[EUR][1000 genomes]
rs11967302	0.80[EUR][1000 genomes]
rs12110357	0.80[EUR][1000 genomes]
rs12110728	0.80[EUR][1000 genomes]
rs4072328	0.80[EUR][1000 genomes]
rs4364497	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4895830	0.80[EUR][1000 genomes]
rs6904354	0.80[EUR][1000 genomes]
rs6935188	0.80[EUR][1000 genomes]
rs7356979	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73586607	0.80[EUR][1000 genomes]
rs73586609	0.80[EUR][1000 genomes]
rs73586611	0.80[EUR][1000 genomes]
rs73586613	0.80[EUR][1000 genomes]
rs7746783	0.80[EUR][1000 genomes]
rs7767531	0.87[ASN][1000 genomes]
rs7769070	0.80[EUR][1000 genomes]
rs9372885	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9491913	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv604643	chr6:128359362-128493991	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv604644	chr6:128394889-128486139	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv886650	chr6:128403745-128513395	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv1031827	chr6:128418702-128497881	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv528869	chr6:128421762-128496557	Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv604646	chr6:128421762-128531651	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv604647	chr6:128421762-128547177	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128419800-128455600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:128425000-128452600	Weak transcription	Primary B cells from peripheral blood	blood
3	chr6:128428000-128452000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:128432200-128448200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:128434400-128449400	Weak transcription	Brain Angular Gyrus	brain
6	chr6:128434400-128455800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:128434400-128456800	Weak transcription	Fetal Stomach	stomach
8	chr6:128435600-128455600	Weak transcription	Left Ventricle	heart
9	chr6:128437800-128450800	Weak transcription	Fetal Heart	heart
10	chr6:128439600-128455600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:128439600-128456400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:128440200-128469200	Weak transcription	HSMM	muscle
13	chr6:128440400-128452200	Weak transcription	Osteobl	bone
14	chr6:128440400-128452400	Weak transcription	NHDF-Ad	bronchial
15	chr6:128443000-128455600	Weak transcription	Small Intestine	intestine
16	chr6:128443200-128455200	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr6:128445800-128455800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:128446600-128455600	Weak transcription	Fetal Intestine Large	intestine
19	chr6:128446600-128455600	Weak transcription	Fetal Intestine Small	intestine
20	chr6:128446800-128460800	Weak transcription	HepG2	liver

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