Variant report

Variant	rs12524157
Chromosome Location	chr6:37929280-37929281
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37927855..37929395-chr6:37932120..37934567,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12191440	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12194872	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12196555	0.93[CHB][hapmap];1.00[JPT][hapmap]
rs1390735	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1472364	1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs259692	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4711519	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6933547	0.87[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription 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 miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1017051	chr6:37789341-38084719	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv538203	chr6:37789341-38084719	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1018711	chr6:37813397-37981590	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1020625	chr6:37833591-38155622	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
8	nsv602956	chr6:37909084-37986489	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37880200-37930000	Weak transcription	Thymus	Thymus
2	chr6:37887600-37933200	Weak transcription	NHDF-Ad	bronchial
3	chr6:37904800-37933400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:37911000-37933200	Weak transcription	NHEK	skin
5	chr6:37911600-37935400	Weak transcription	Primary B cells from cord blood	blood
6	chr6:37911600-37936200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:37920000-37933600	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:37920800-37930600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr6:37921000-37933000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:37922200-37933400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:37922600-37939000	Weak transcription	Duodenum Mucosa	Duodenum
12	chr6:37922800-37938600	Weak transcription	Fetal Lung	lung
13	chr6:37922800-37957600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:37922800-37958600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:37923000-37939000	Weak transcription	Ovary	ovary
16	chr6:37923400-37931200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr6:37923600-37938800	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr6:37923600-37942200	Weak transcription	Aorta	Aorta
19	chr6:37923600-37947400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr6:37923800-37934200	Weak transcription	Fetal Muscle Leg	muscle
21	chr6:37924400-37932400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:37924600-37941600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:37925000-37934600	Weak transcription	A549	lung
24	chr6:37925200-37933200	Weak transcription	Osteobl	bone
25	chr6:37925200-37938800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr6:37925400-37933600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr6:37925400-37939400	Weak transcription	Adipose Nuclei	Adipose
28	chr6:37925600-37934200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:37925600-37936400	Weak transcription	Colon Smooth Muscle	Colon
30	chr6:37925800-37930800	Weak transcription	Liver	Liver
31	chr6:37926000-37936200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:37926400-37933400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr6:37926800-37955000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr6:37927000-37933000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:37927000-37933600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:37927000-37937600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:37927000-37942400	Weak transcription	Psoas Muscle	Psoas
38	chr6:37927200-37933400	Weak transcription	HSMM	muscle
39	chr6:37927200-37933800	Weak transcription	Small Intestine	intestine
40	chr6:37927200-37942400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr6:37927600-37930800	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr6:37928000-37934400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
43	chr6:37928000-37935800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr6:37928400-37933200	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr6:37928400-37933600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr6:37928600-37929400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:37928600-37929400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr6:37928600-37929400	Enhancers	Lung	lung
49	chr6:37928600-37931000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
50	chr6:37928600-37932200	Enhancers	Primary T killer naive cells fromperipheralblood	blood

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