Variant report

Variant	rs1865924
Chromosome Location	chr15:34377380-34377381
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	chr15:34361181..34363649-chr15:34376395..34377918,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10775220	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11630826	1.00[YRI][hapmap]
rs12917199	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2243764	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2257058	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632074	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2632089	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684938	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684942	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684948	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684949	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2684957	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2702275	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2705351	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2879445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4411478	0.96[AFR][1000 genomes]
rs4780200	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780201	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4780202	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs486970	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs499142	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs527470	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs537920	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs542890	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs545484	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs547824	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs572179	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs591999	1.00[AMR][1000 genomes]
rs612992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs643827	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6495516	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs681873	1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs682484	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs683417	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7162728	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7494971	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8027337	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8030334	1.00[YRI][hapmap]
rs8041507	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34354400-34379600	Weak transcription	Brain Cingulate Gyrus	brain
2	chr15:34358600-34393000	Weak transcription	Aorta	Aorta
3	chr15:34365800-34378000	Weak transcription	HSMMtube	muscle
4	chr15:34368000-34379600	Weak transcription	Fetal Brain Female	brain
5	chr15:34368000-34391600	Weak transcription	Right Ventricle	heart
6	chr15:34368200-34378200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr15:34368800-34392400	Weak transcription	Psoas Muscle	Psoas
8	chr15:34369400-34377600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr15:34369400-34378200	Weak transcription	Esophagus	oesophagus
10	chr15:34369600-34378000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr15:34369600-34391600	Weak transcription	NHEK	skin
12	chr15:34370000-34379600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr15:34371000-34377600	Weak transcription	Fetal Intestine Small	intestine
14	chr15:34372000-34378000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr15:34372800-34393200	Weak transcription	Colonic Mucosa	Colon
16	chr15:34373400-34378200	Weak transcription	Colon Smooth Muscle	Colon
17	chr15:34373600-34392400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr15:34374200-34377600	Weak transcription	Fetal Muscle Leg	muscle
19	chr15:34374200-34379600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr15:34374200-34379600	Weak transcription	HMEC	breast
21	chr15:34374200-34383800	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr15:34374200-34392800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:34374400-34391600	Weak transcription	Fetal Brain Male	brain
24	chr15:34374600-34382600	Strong transcription	Primary T cells fromperipheralblood	blood
25	chr15:34374600-34382600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:34374800-34379800	Weak transcription	Rectal Smooth Muscle	rectum
27	chr15:34374800-34380800	Weak transcription	Pancreas	Pancrea
28	chr15:34374800-34381000	Strong transcription	Fetal Thymus	thymus
29	chr15:34374800-34382000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr15:34374800-34382600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
31	chr15:34374800-34383000	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr15:34374800-34384200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr15:34374800-34385600	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr15:34374800-34391600	Weak transcription	Small Intestine	intestine
35	chr15:34374800-34393000	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr15:34375000-34377600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr15:34375000-34378400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:34375000-34378400	Weak transcription	Stomach Smooth Muscle	stomach
39	chr15:34375000-34382000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr15:34375000-34382800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr15:34375000-34386800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr15:34375000-34392800	Weak transcription	Fetal Heart	heart
43	chr15:34375000-34393000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr15:34375200-34378200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr15:34375200-34380800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr15:34375200-34382600	Strong transcription	Primary neutrophils fromperipheralblood	blood
47	chr15:34375400-34378200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr15:34375400-34381200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr15:34375400-34382600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr15:34375400-34382600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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