Variant report

Variant	rs17066653
Chromosome Location	chr6:106611705-106611706
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	chr6:106609627..106612260-chr6:106633159..106635604,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17587088	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55859785	0.87[AMR][1000 genomes]
rs6910095	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7772706	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9486291	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025231	chr6:106451012-106634389	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv830755	chr6:106461705-106624202	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	esv1832544	chr6:106539914-106642993	Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
10	nsv1022855	chr6:106570926-106802072	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
11	nsv538401	chr6:106570926-106802072	Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
12	nsv1019265	chr6:106587627-106727591	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
13	nsv538402	chr6:106587627-106727591	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
14	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
15	nsv1025963	chr6:106593639-106848778	Strong transcription Bivalent Enhancer Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
16	nsv1020047	chr6:106597828-106912047	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106603200-106616000	Weak transcription	Aorta	Aorta
2	chr6:106608400-106613600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:106610600-106611800	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr6:106610600-106611800	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr6:106610600-106612600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:106610600-106612600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr6:106610600-106612800	Enhancers	Dnd41	blood
8	chr6:106610600-106613000	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr6:106610600-106613000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr6:106610800-106612000	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:106610800-106612000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
12	chr6:106610800-106612200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:106610800-106612200	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr6:106610800-106612400	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr6:106610800-106612400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr6:106610800-106612400	Enhancers	Placenta	Placenta
17	chr6:106610800-106612600	Enhancers	Fetal Muscle Trunk	muscle
18	chr6:106610800-106612600	Enhancers	Skeletal Muscle Female	skeletal muscle
19	chr6:106610800-106612800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:106610800-106612800	Enhancers	Fetal Muscle Leg	muscle
21	chr6:106610800-106612800	Enhancers	Small Intestine	intestine
22	chr6:106610800-106613000	Flanking Active TSS	GM12878-XiMat	blood
23	chr6:106610800-106613000	Enhancers	NHLF	lung
24	chr6:106611000-106611800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
25	chr6:106611000-106611800	Enhancers	H9 Cell Line	embryonic stem cell
26	chr6:106611000-106611800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr6:106611000-106611800	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr6:106611000-106611800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr6:106611000-106611800	Flanking Active TSS	NHDF-Ad	bronchial
30	chr6:106611000-106612000	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:106611000-106612000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:106611000-106612000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:106611000-106612000	Enhancers	Fetal Intestine Small	intestine
34	chr6:106611000-106612200	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr6:106611000-106612200	Enhancers	HSMMtube	muscle
36	chr6:106611000-106612400	Enhancers	ES-I3 Cell Line	embryonic stem cell
37	chr6:106611000-106612400	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr6:106611000-106612400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr6:106611000-106612400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:106611000-106612400	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr6:106611000-106612600	Enhancers	H1 Cell Line	embryonic stem cell
42	chr6:106611000-106612600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:106611000-106612600	Enhancers	Colonic Mucosa	Colon
44	chr6:106611000-106612600	Enhancers	Fetal Brain Male	brain
45	chr6:106611000-106612800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr6:106611000-106612800	Enhancers	Spleen	Spleen
47	chr6:106611000-106613000	Enhancers	Primary hematopoietic stem cells short term culture	blood
48	chr6:106611000-106613000	Enhancers	Fetal Thymus	thymus
49	chr6:106611000-106613000	Enhancers	NH-A	brain
50	chr6:106611200-106611800	Enhancers	Brain Cingulate Gyrus	brain

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