Variant report

Variant	rs16842822
Chromosome Location	chr3:100495178-100495179
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100494124..100496299-chr3:100500365..100501965,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11716316	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs12496951	0.87[CHD][hapmap]
rs13322026	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1354375	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.85[EUR][1000 genomes]
rs1394077	0.86[CHD][hapmap];0.88[ASN][1000 genomes]
rs1503839	0.87[CHD][hapmap]
rs1503845	0.87[CHD][hapmap]
rs16842839	0.81[ASW][hapmap];1.00[CEU][hapmap];0.91[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16842845	0.87[CHD][hapmap]
rs3736534	0.90[CHD][hapmap];1.00[LWK][hapmap];0.86[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs544500	0.83[CHB][hapmap];0.90[CHD][hapmap]
rs547330	0.83[CHB][hapmap]
rs58758917	0.85[AFR][1000 genomes]
rs754462	0.83[CHB][hapmap];0.89[ASN][1000 genomes]
rs7609779	0.95[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs7612334	0.80[JPT][hapmap]
rs7613610	0.95[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs7632038	0.95[CHB][hapmap];0.92[CHD][hapmap];0.85[JPT][hapmap];0.93[ASN][1000 genomes]
rs7642942	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs764684	0.87[CHD][hapmap]
rs7648469	1.00[CEU][hapmap];0.88[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7652511	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9290224	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.85[EUR][1000 genomes]
rs983474	0.95[CHB][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap];0.94[ASN][1000 genomes]
rs9842968	0.91[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs9850273	1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs9860967	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9881972	1.00[CEU][hapmap];0.85[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes]
rs989793	0.80[JPT][hapmap]
rs989795	0.87[CHD][hapmap]

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100450000-100501000	Weak transcription	Esophagus	oesophagus
2	chr3:100467400-100497600	Weak transcription	Fetal Intestine Small	intestine
3	chr3:100469800-100498200	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:100469800-100501400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:100470200-100498400	Weak transcription	Right Ventricle	heart
6	chr3:100471000-100495800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr3:100471600-100500400	Weak transcription	Lung	lung
8	chr3:100471800-100502000	Weak transcription	Brain Anterior Caudate	brain
9	chr3:100473800-100496400	Weak transcription	Fetal Intestine Large	intestine
10	chr3:100474400-100500200	Weak transcription	HSMM	muscle
11	chr3:100474400-100501200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:100475000-100499000	Weak transcription	Placenta	Placenta
13	chr3:100475600-100520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:100478400-100496600	Weak transcription	Aorta	Aorta
15	chr3:100478800-100502000	Weak transcription	Psoas Muscle	Psoas
16	chr3:100488600-100504600	Weak transcription	Adipose Nuclei	Adipose
17	chr3:100489600-100500200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr3:100489800-100495600	Weak transcription	Ovary	ovary
19	chr3:100489800-100504800	Weak transcription	Left Ventricle	heart
20	chr3:100492400-100501000	Strong transcription	Stomach Smooth Muscle	stomach
21	chr3:100493000-100497200	Strong transcription	Fetal Muscle Trunk	muscle
22	chr3:100493000-100497200	Strong transcription	Fetal Muscle Leg	muscle
23	chr3:100493400-100495400	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr3:100493800-100497200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:100494000-100496800	Enhancers	NHLF	lung
26	chr3:100494000-100497200	Genic enhancers	Osteobl	bone
27	chr3:100494400-100496800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:100494400-100496800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:100494400-100496800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr3:100494400-100497200	Genic enhancers	NHDF-Ad	bronchial
31	chr3:100494600-100495200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr3:100494600-100495800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr3:100494600-100496800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr3:100494600-100496800	Enhancers	NH-A	brain
35	chr3:100494800-100495200	Weak transcription	Fetal Lung	lung
36	chr3:100494800-100495800	Weak transcription	NHEK	skin
37	chr3:100494800-100499200	Strong transcription	Fetal Stomach	stomach
38	chr3:100494800-100501600	Weak transcription	HMEC	breast
39	chr3:100494800-100523400	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr3:100495000-100496800	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr3:100495000-100497200	Strong transcription	Muscle Satellite Cultured Cells	--
42	chr3:100495000-100499200	Strong transcription	HSMMtube	muscle
43	chr3:100495000-100501000	Weak transcription	Colon Smooth Muscle	Colon

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