Variant report

Variant	rs2842518
Chromosome Location	chr6:37925672-37925673
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	chr6:37924674..37926815-chr6:37929494..37931459,2	MCF-7	breast:
2	chr6:37923129..37926098-chr6:37932741..37935067,3	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11963886	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs1496579	1.00[ASN][1000 genomes]
rs16890244	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs16890367	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs2495213	1.00[ASN][1000 genomes]
rs2645103	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2645133	1.00[ASN][1000 genomes]
rs2645135	1.00[ASN][1000 genomes]
rs2645136	1.00[ASN][1000 genomes]
rs2645138	1.00[ASN][1000 genomes]
rs2749920	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842501	1.00[ASN][1000 genomes]
rs2842502	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs2842504	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842509	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs2842519	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs6458033	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6930917	1.00[CEU][hapmap];1.00[ASN][1000 genomes]
rs7765420	1.00[ASN][1000 genomes]
rs7775465	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs9380711	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470707	1.00[TSI][hapmap]
rs9470716	1.00[TSI][hapmap]
rs9470781	1.00[TSI][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:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37873400-37929200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr6:37880200-37930000	Weak transcription	Thymus	Thymus
3	chr6:37887600-37933200	Weak transcription	NHDF-Ad	bronchial
4	chr6:37892600-37928800	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr6:37896800-37929000	Weak transcription	Esophagus	oesophagus
6	chr6:37904800-37933400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:37907000-37926600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:37911000-37933200	Weak transcription	NHEK	skin
9	chr6:37911600-37928600	Weak transcription	Lung	lung
10	chr6:37911600-37935400	Weak transcription	Primary B cells from cord blood	blood
11	chr6:37911600-37936200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr6:37917000-37928800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr6:37917800-37928600	Weak transcription	Fetal Intestine Small	intestine
14	chr6:37918200-37926800	Weak transcription	Gastric	stomach
15	chr6:37920000-37933600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr6:37920600-37928000	Weak transcription	Primary T cells from cord blood	blood
17	chr6:37920600-37928000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr6:37920800-37930600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:37921000-37933000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr6:37922200-37925800	Enhancers	Liver	Liver
21	chr6:37922200-37933400	Weak transcription	Brain Inferior Temporal Lobe	brain
22	chr6:37922600-37939000	Weak transcription	Duodenum Mucosa	Duodenum
23	chr6:37922800-37928600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr6:37922800-37938600	Weak transcription	Fetal Lung	lung
25	chr6:37922800-37957600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:37922800-37958600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr6:37923000-37926800	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr6:37923000-37927000	Weak transcription	HUES6 Cell Line	embryonic stem cell
29	chr6:37923000-37928800	Weak transcription	Pancreas	Pancrea
30	chr6:37923000-37939000	Weak transcription	Ovary	ovary
31	chr6:37923200-37926800	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:37923200-37928400	Weak transcription	Brain Angular Gyrus	brain
33	chr6:37923400-37931200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr6:37923600-37927800	Weak transcription	Primary B cells from peripheral blood	blood
35	chr6:37923600-37938800	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr6:37923600-37942200	Weak transcription	Aorta	Aorta
37	chr6:37923600-37947400	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:37923800-37926400	Weak transcription	Small Intestine	intestine
39	chr6:37923800-37926600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
40	chr6:37923800-37926600	Weak transcription	GM12878-XiMat	blood
41	chr6:37923800-37926800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
42	chr6:37923800-37934200	Weak transcription	Fetal Muscle Leg	muscle
43	chr6:37924400-37932400	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr6:37924600-37941600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:37924800-37926000	Weak transcription	Psoas Muscle	Psoas
46	chr6:37924800-37926600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr6:37924800-37928200	Weak transcription	Right Atrium	heart
48	chr6:37924800-37928800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr6:37924800-37928800	Weak transcription	Spleen	Spleen
50	chr6:37925000-37926800	Weak transcription	Primary T helper cells PMA-I stimulated	--

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