Variant report

Variant	rs9478776
Chromosome Location	chr6:150985515-150985516
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	chr6:150918773..150921763-chr6:150985077..150987164,2	MCF-7	breast:
2	chr6:150765548..150768307-chr6:150984281..150986036,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000120278	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10085221	0.82[AMR][1000 genomes]
rs1964631	0.87[AMR][1000 genomes]
rs4869924	0.88[CEU][hapmap]
rs4869925	0.84[AMR][1000 genomes]
rs73006338	0.89[AMR][1000 genomes]
rs73006339	0.87[AMR][1000 genomes]
rs73008164	0.89[AMR][1000 genomes]
rs73008165	0.87[AMR][1000 genomes]
rs73008166	0.87[AMR][1000 genomes]
rs73008169	0.87[AMR][1000 genomes]
rs9478777	0.88[CEU][hapmap];0.82[AMR][1000 genomes]
rs9478778	0.89[AMR][1000 genomes]
rs9480511	0.88[CEU][hapmap];0.82[AMR][1000 genomes]
rs9480512	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]
rs9480513	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9480515	0.89[AMR][1000 genomes]
rs9480516	0.88[CEU][hapmap];0.85[MEX][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes]
rs9480517	0.88[CEU][hapmap];0.87[AMR][1000 genomes]
rs9480518	0.88[CEU][hapmap];0.85[MEX][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes]
rs9480520	0.87[AMR][1000 genomes]
rs9480521	0.88[CEU][hapmap];0.87[AMR][1000 genomes]
rs9480522	0.88[CEU][hapmap];0.87[AMR][1000 genomes]
rs9480523	0.87[AMR][1000 genomes]
rs9480524	0.87[AMR][1000 genomes]

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:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150959800-150987400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:150964800-150987400	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:150971600-150986800	Weak transcription	Left Ventricle	heart
4	chr6:150974800-150988600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr6:150975600-151002800	Weak transcription	Fetal Muscle Trunk	muscle
6	chr6:150975800-150988400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:150976000-150988600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:150977800-150988800	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:150977800-150989200	Weak transcription	HUVEC	blood vessel
10	chr6:150979400-150987000	Weak transcription	Right Atrium	heart
11	chr6:150980600-150987000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:150980600-150988400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:150980600-150988800	Weak transcription	Fetal Brain Female	brain
14	chr6:150980600-151008800	Weak transcription	Gastric	stomach
15	chr6:150980800-150985800	Weak transcription	Lung	lung
16	chr6:150980800-150987000	Weak transcription	Brain Substantia Nigra	brain
17	chr6:150980800-150987000	Weak transcription	Rectal Smooth Muscle	rectum
18	chr6:150980800-150987000	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr6:150980800-150987400	Weak transcription	Duodenum Mucosa	Duodenum
20	chr6:150980800-150989000	Weak transcription	Small Intestine	intestine
21	chr6:150980800-150989600	Weak transcription	Brain Anterior Caudate	brain
22	chr6:150980800-150989600	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:150980800-151014800	Weak transcription	Pancreas	Pancrea
24	chr6:150981000-150987000	Weak transcription	Stomach Mucosa	stomach
25	chr6:150981000-150988800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr6:150981000-150989400	Weak transcription	Liver	Liver
27	chr6:150981200-150987200	Weak transcription	Fetal Kidney	kidney
28	chr6:150981200-150988400	Weak transcription	Fetal Heart	heart
29	chr6:150981200-150988800	Weak transcription	HMEC	breast
30	chr6:150981200-150989200	Weak transcription	Fetal Intestine Large	intestine
31	chr6:150982200-150987200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr6:150982400-150987000	Weak transcription	Spleen	Spleen
33	chr6:150982600-150986400	Strong transcription	Primary B cells from cord blood	blood
34	chr6:150982800-150986200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:150982800-150986800	Weak transcription	Fetal Muscle Leg	muscle
36	chr6:150983000-150987000	Weak transcription	Fetal Lung	lung
37	chr6:150983400-150987000	Weak transcription	Placenta	Placenta
38	chr6:150984400-150986400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:150984600-150985800	Strong transcription	Fetal Stomach	stomach
40	chr6:150985200-150985800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr6:150985200-150986000	Strong transcription	Fetal Intestine Small	intestine
42	chr6:150985200-150986200	Genic enhancers	Thymus	Thymus
43	chr6:150985200-150986800	Genic enhancers	Fetal Thymus	thymus
44	chr6:150985400-150985600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr6:150985400-150986200	Enhancers	Brain Germinal Matrix	brain
46	chr6:150985400-150987200	Genic enhancers	Primary B cells from peripheral blood	blood

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