Variant report

Variant	rs9480503
Chromosome Location	chr6:150950041-150950042
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	chr6:150944124..150946424-chr6:150947908..150950533,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000224029	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs11968779	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs1352975	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17080012	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs201531	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2345668	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2345669	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs275348	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4323318	0.91[CEU][hapmap];0.95[EUR][1000 genomes]
rs4400227	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4530869	0.91[CEU][hapmap];0.95[EUR][1000 genomes]
rs4869921	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4869922	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4869924	1.00[JPT][hapmap]
rs4869932	1.00[JPT][hapmap]
rs4870533	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4870534	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4870535	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes]
rs4870537	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432653	0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432656	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432657	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432658	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432659	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62434060	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62434061	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62434062	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62434064	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62434092	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434093	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434094	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434095	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434096	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434097	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434098	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434099	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434100	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434101	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434102	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434103	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62434104	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73002187	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73002188	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73002195	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73004311	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73016045	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73016054	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9478767	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478768	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478769	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478770	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478771	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes]
rs9478772	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9478773	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9478774	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9478777	1.00[JPT][hapmap]
rs9480490	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480492	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes]
rs9480493	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480494	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480495	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480496	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480497	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480499	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480505	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9480511	1.00[JPT][hapmap]
rs9480516	1.00[JPT][hapmap]
rs9480517	1.00[JPT][hapmap]
rs9480518	1.00[JPT][hapmap]
rs9480521	1.00[JPT][hapmap]
rs9480522	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv886774	chr6:150931131-150983318	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv522403	chr6:150947524-150950215	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150928400-150952800	Weak transcription	Right Ventricle	heart
2	chr6:150939000-150954200	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr6:150941200-150953000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:150941800-150954000	Weak transcription	Brain Angular Gyrus	brain
5	chr6:150941800-150962600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:150945000-150954200	Weak transcription	Aorta	Aorta
7	chr6:150947200-150953400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:150947400-150950400	Enhancers	Fetal Intestine Large	intestine
9	chr6:150947400-150950400	Enhancers	Fetal Kidney	kidney
10	chr6:150947400-150950400	Enhancers	Fetal Lung	lung
11	chr6:150947400-150950400	Enhancers	Fetal Stomach	stomach
12	chr6:150947400-150950400	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr6:150947400-150950400	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr6:150947600-150950400	Enhancers	Rectal Mucosa Donor 29	rectum
15	chr6:150947600-150951800	Enhancers	HepG2	liver
16	chr6:150947600-150952800	Enhancers	Duodenum Mucosa	Duodenum
17	chr6:150947600-150957400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:150947800-150950200	Enhancers	Fetal Brain Male	brain
19	chr6:150947800-150951800	Weak transcription	Placenta	Placenta
20	chr6:150947800-150959400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr6:150948000-150953800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr6:150948200-150952400	Weak transcription	Fetal Muscle Trunk	muscle
23	chr6:150948600-150950800	Enhancers	Fetal Intestine Small	intestine
24	chr6:150948800-150950200	Enhancers	Fetal Heart	heart
25	chr6:150948800-150950200	Enhancers	Rectal Smooth Muscle	rectum
26	chr6:150948800-150950400	Enhancers	Stomach Mucosa	stomach
27	chr6:150949000-150950400	Enhancers	Fetal Muscle Leg	muscle
28	chr6:150949000-150950400	Enhancers	Small Intestine	intestine
29	chr6:150949000-150958000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr6:150949200-150952600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr6:150949200-150952600	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr6:150949200-150953000	Enhancers	Primary B cells from cord blood	blood
33	chr6:150949200-150955000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr6:150949400-150952000	Weak transcription	Primary T cells from cord blood	blood
35	chr6:150949600-150950200	Enhancers	Colonic Mucosa	Colon
36	chr6:150949600-150950200	Enhancers	Left Ventricle	heart
37	chr6:150949600-150950400	Enhancers	Gastric	stomach
38	chr6:150949600-150950400	Enhancers	Pancreas	Pancrea
39	chr6:150949600-150950400	Enhancers	Spleen	Spleen
40	chr6:150949600-150950600	Genic enhancers	Primary B cells from peripheral blood	blood
41	chr6:150949600-150952000	Weak transcription	Adipose Nuclei	Adipose
42	chr6:150949600-150953000	Weak transcription	Primary hematopoietic stem cells	blood
43	chr6:150949800-150950200	Flanking Active TSS	Liver	Liver
44	chr6:150949800-150950200	Weak transcription	Right Atrium	heart
45	chr6:150950000-150950200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:150950000-150950400	Genic enhancers	Fetal Thymus	thymus
47	chr6:150950000-150950400	Enhancers	Lung	lung
48	chr6:150950000-150950400	Genic enhancers	Thymus	Thymus
49	chr6:150950000-150952000	Weak transcription	Fetal Brain Female	brain

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