Variant report

Variant	rs1012896
Chromosome Location	chr6:166848325-166848326
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	chr6:166846709..166849612-chr6:166857165..166859206,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs16898914	1.00[AMR][1000 genomes]
rs56679124	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61260444	1.00[AMR][1000 genomes]
rs73269268	0.81[AFR][1000 genomes]
rs9459666	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9459667	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9459668	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9459670	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9459671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9459672	1.00[AMR][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	esv3490076	chr6:166727901-167306743	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
2	esv3490077	chr6:166727901-167306743	Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
3	nsv886937	chr6:166830696-166922813	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:166808200-166911800	Weak transcription	Psoas Muscle	Psoas
2	chr6:166824000-166901400	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr6:166825000-166849200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:166825200-166853000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr6:166825200-166875800	Weak transcription	Colonic Mucosa	Colon
6	chr6:166826600-166848800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:166827000-166873400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:166827600-166867200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr6:166829800-166851800	Weak transcription	Fetal Brain Male	brain
10	chr6:166830000-166866600	Weak transcription	Fetal Intestine Large	intestine
11	chr6:166833200-166864400	Weak transcription	Fetal Kidney	kidney
12	chr6:166833200-166879000	Weak transcription	NH-A	brain
13	chr6:166833400-166854800	Weak transcription	Primary B cells from cord blood	blood
14	chr6:166833400-166879000	Weak transcription	HSMM	muscle
15	chr6:166833600-166859600	Weak transcription	HMEC	breast
16	chr6:166834000-166866400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr6:166834200-166863800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:166834200-166879400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:166834600-166862000	Weak transcription	NHDF-Ad	bronchial
20	chr6:166835000-166849000	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr6:166836400-166853000	Weak transcription	Fetal Lung	lung
22	chr6:166837800-166849000	Weak transcription	Primary T cells from cord blood	blood
23	chr6:166838000-166856000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:166838200-166849400	Weak transcription	Rectal Mucosa Donor 29	rectum
25	chr6:166838200-166853000	Weak transcription	HUVEC	blood vessel
26	chr6:166838200-166860400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:166841200-166849000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:166843000-166851400	Strong transcription	Cortex derived primary cultured neurospheres	brain
29	chr6:166843000-166851600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:166843000-166865200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:166843200-166849000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:166843200-166849200	Strong transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:166843200-166849400	Strong transcription	Muscle Satellite Cultured Cells	--
34	chr6:166843600-166851600	Strong transcription	Fetal Stomach	stomach
35	chr6:166844200-166849200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr6:166844200-166860400	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr6:166844200-166865200	Weak transcription	Rectal Smooth Muscle	rectum
38	chr6:166845800-166849000	Weak transcription	Fetal Muscle Leg	muscle
39	chr6:166845800-166860000	Weak transcription	Colon Smooth Muscle	Colon
40	chr6:166845800-166860200	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr6:166845800-166862000	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr6:166845800-166863400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
43	chr6:166846000-166849000	Weak transcription	Brain Angular Gyrus	brain
44	chr6:166846000-166849000	Weak transcription	Brain Germinal Matrix	brain
45	chr6:166846000-166849200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr6:166846000-166849600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr6:166846000-166849800	Weak transcription	Left Ventricle	heart
48	chr6:166846000-166850800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr6:166846000-166852200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr6:166846000-166853000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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