Variant report

Variant	rs62434102
Chromosome Location	chr6:150947717-150947718
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	chr6:150947452..150949419-chr6:150952657..150955576,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs11968779	1.00[EUR][1000 genomes]
rs1352975	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17080012	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs201531	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	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs275348	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4323318	0.95[EUR][1000 genomes]
rs4400227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4530869	0.95[EUR][1000 genomes]
rs4869921	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4869922	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4870533	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4870534	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4870535	0.97[EUR][1000 genomes]
rs4870537	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432653	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62432656	1.00[AFR][1000 genomes];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	1.00[AFR][1000 genomes];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	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434095	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434096	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434097	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434098	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434099	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434100	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62434101	1.00[AFR][1000 genomes];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[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73002188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73002195	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	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73016054	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9478767	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478768	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478769	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478770	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9478771	0.97[EUR][1000 genomes]
rs9478772	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9478773	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9478774	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9480490	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480492	0.97[EUR][1000 genomes]
rs9480493	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480494	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480495	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480496	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480497	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9480499	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480503	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480505	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

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:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150928400-150952800	Weak transcription	Right Ventricle	heart
2	chr6:150928600-150948800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:150939000-150949600	Weak transcription	Pancreas	Pancrea
4	chr6:150939000-150954200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:150939800-150948600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:150940800-150948600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:150941200-150953000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr6:150941800-150954000	Weak transcription	Brain Angular Gyrus	brain
9	chr6:150941800-150962600	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr6:150942000-150949600	Weak transcription	Colonic Mucosa	Colon
11	chr6:150942000-150949600	Weak transcription	Gastric	stomach
12	chr6:150942200-150948800	Weak transcription	Stomach Mucosa	stomach
13	chr6:150942400-150948000	Weak transcription	Small Intestine	intestine
14	chr6:150942600-150948000	Weak transcription	Fetal Intestine Small	intestine
15	chr6:150944600-150948000	Weak transcription	Liver	Liver
16	chr6:150944800-150948200	Genic enhancers	Fetal Thymus	thymus
17	chr6:150945000-150948000	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr6:150945000-150948000	Weak transcription	HUVEC	blood vessel
19	chr6:150945000-150950000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:150945000-150954200	Weak transcription	Aorta	Aorta
21	chr6:150945600-150948000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr6:150945600-150950000	Weak transcription	Lung	lung
23	chr6:150945800-150948400	Enhancers	Primary B cells from cord blood	blood
24	chr6:150945800-150948400	Weak transcription	Primary T cells from cord blood	blood
25	chr6:150946400-150948200	Genic enhancers	Primary B cells from peripheral blood	blood
26	chr6:150947200-150948000	Enhancers	Spleen	Spleen
27	chr6:150947200-150948200	Genic enhancers	Thymus	Thymus
28	chr6:150947200-150953400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr6:150947400-150947800	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:150947400-150947800	Enhancers	Placenta	Placenta
31	chr6:150947400-150947800	Enhancers	Left Ventricle	heart
32	chr6:150947400-150948000	Enhancers	Right Atrium	heart
33	chr6:150947400-150948400	Weak transcription	Fetal Brain Female	brain
34	chr6:150947400-150949600	Enhancers	Primary hematopoietic stem cells	blood
35	chr6:150947400-150950400	Enhancers	Fetal Intestine Large	intestine
36	chr6:150947400-150950400	Enhancers	Fetal Kidney	kidney
37	chr6:150947400-150950400	Enhancers	Fetal Lung	lung
38	chr6:150947400-150950400	Enhancers	Fetal Stomach	stomach
39	chr6:150947400-150950400	Enhancers	Rectal Mucosa Donor 31	rectum
40	chr6:150947400-150950400	Enhancers	Sigmoid Colon	Sigmoid Colon
41	chr6:150947600-150948200	Enhancers	Fetal Muscle Trunk	muscle
42	chr6:150947600-150948200	Enhancers	Fetal Muscle Leg	muscle
43	chr6:150947600-150948400	Enhancers	Fetal Heart	heart
44	chr6:150947600-150949600	Enhancers	Adipose Nuclei	Adipose
45	chr6:150947600-150950400	Enhancers	Rectal Mucosa Donor 29	rectum
46	chr6:150947600-150951800	Enhancers	HepG2	liver
47	chr6:150947600-150952800	Enhancers	Duodenum Mucosa	Duodenum
48	chr6:150947600-150957400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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