Variant report

Variant	rs9480512
Chromosome Location	chr6:150987778-150987779
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	chr6:150982869..150985340-chr6:150985871..150988445,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10085221	0.89[AMR][1000 genomes]
rs1964631	0.94[AMR][1000 genomes]
rs4869924	1.00[CEU][hapmap];0.86[AMR][1000 genomes]
rs4869925	0.91[AMR][1000 genomes]
rs73004397	0.86[AMR][1000 genomes]
rs73006338	0.97[AMR][1000 genomes]
rs73006339	0.94[AMR][1000 genomes]
rs73008164	0.97[AMR][1000 genomes]
rs73008165	0.94[AMR][1000 genomes]
rs73008166	0.94[AMR][1000 genomes]
rs73008169	0.94[AMR][1000 genomes]
rs9478776	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9478777	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs9478778	0.97[AMR][1000 genomes]
rs9480511	1.00[CEU][hapmap];0.89[AMR][1000 genomes]
rs9480513	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480515	0.97[AMR][1000 genomes]
rs9480516	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs9480517	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs9480518	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs9480520	0.94[AMR][1000 genomes]
rs9480521	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs9480522	1.00[CEU][hapmap];0.94[AMR][1000 genomes]
rs9480523	0.94[AMR][1000 genomes]
rs9480524	0.94[AMR][1000 genomes]
rs9480530	0.86[CHB][hapmap]

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	nsv886772	chr6:150743364-151024280	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1030326	chr6:150967665-151641372	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150974800-150988600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:150975600-151002800	Weak transcription	Fetal Muscle Trunk	muscle
3	chr6:150975800-150988400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr6:150976000-150988600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:150977800-150988800	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr6:150977800-150989200	Weak transcription	HUVEC	blood vessel
7	chr6:150980600-150988400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:150980600-150988800	Weak transcription	Fetal Brain Female	brain
9	chr6:150980600-151008800	Weak transcription	Gastric	stomach
10	chr6:150980800-150989000	Weak transcription	Small Intestine	intestine
11	chr6:150980800-150989600	Weak transcription	Brain Anterior Caudate	brain
12	chr6:150980800-150989600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
14	chr6:150981000-150988800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:150981000-150989400	Weak transcription	Liver	Liver
16	chr6:150981200-150988400	Weak transcription	Fetal Heart	heart
17	chr6:150981200-150988800	Weak transcription	HMEC	breast
18	chr6:150981200-150989200	Weak transcription	Fetal Intestine Large	intestine
19	chr6:150986000-150988600	Weak transcription	Fetal Intestine Small	intestine
20	chr6:150986000-150990800	Enhancers	Fetal Stomach	stomach
21	chr6:150986200-150987800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr6:150986200-150987800	Enhancers	Thymus	Thymus
23	chr6:150986200-150989000	Weak transcription	Brain Germinal Matrix	brain
24	chr6:150986800-150987800	Enhancers	Primary hematopoietic stem cells	blood
25	chr6:150986800-150987800	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr6:150986800-150987800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:150986800-150987800	Enhancers	Adipose Nuclei	Adipose
28	chr6:150986800-150987800	Enhancers	Fetal Muscle Leg	muscle
29	chr6:150986800-150987800	Enhancers	Left Ventricle	heart
30	chr6:150986800-150988000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:150986800-150988200	Enhancers	Fetal Thymus	thymus
32	chr6:150987000-150987800	Enhancers	Brain Angular Gyrus	brain
33	chr6:150987000-150987800	Enhancers	Brain Hippocampus Middle	brain
34	chr6:150987000-150987800	Enhancers	Colon Smooth Muscle	Colon
35	chr6:150987000-150987800	Enhancers	Esophagus	oesophagus
36	chr6:150987000-150987800	Enhancers	Right Atrium	heart
37	chr6:150987000-150987800	Enhancers	Sigmoid Colon	Sigmoid Colon
38	chr6:150987000-150987800	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr6:150987000-150988000	Enhancers	Brain Substantia Nigra	brain
40	chr6:150987000-150988000	Enhancers	Duodenum Smooth Muscle	Duodenum
41	chr6:150987000-150988000	Enhancers	Fetal Lung	lung
42	chr6:150987000-150988000	Enhancers	Placenta	Placenta
43	chr6:150987200-150987800	Strong transcription	Primary B cells from peripheral blood	blood
44	chr6:150987200-150987800	Genic enhancers	Spleen	Spleen
45	chr6:150987200-150988800	Weak transcription	Stomach Mucosa	stomach
46	chr6:150987200-150989000	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr6:150987400-150987800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr6:150987400-150987800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr6:150987400-150987800	Enhancers	Brain Cingulate Gyrus	brain
50	chr6:150987400-150987800	Enhancers	Duodenum Mucosa	Duodenum

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