Variant report

Variant	rs2570802
Chromosome Location	chr15:100142444-100142445
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	chr15:100142017..100143605-chr15:100156751..100158277,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1036320	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1108205	1.00[EUR][1000 genomes]
rs11247122	1.00[EUR][1000 genomes]
rs2570800	1.00[EUR][1000 genomes]
rs2570803	1.00[EUR][1000 genomes]
rs2570809	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570814	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570820	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570824	1.00[EUR][1000 genomes]
rs2570924	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570925	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570926	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2570931	1.00[EUR][1000 genomes]
rs2570932	1.00[EUR][1000 genomes]
rs2570933	1.00[EUR][1000 genomes]
rs2570935	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2570938	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2581463	1.00[EUR][1000 genomes]
rs2581473	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28661496	1.00[EUR][1000 genomes]
rs28747079	1.00[EUR][1000 genomes]
rs28816423	1.00[EUR][1000 genomes]
rs325385	1.00[EUR][1000 genomes]
rs325388	1.00[EUR][1000 genomes]
rs325399	1.00[EUR][1000 genomes]
rs325401	1.00[EUR][1000 genomes]
rs325407	1.00[EUR][1000 genomes]
rs7163764	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7170276	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7182926	1.00[EUR][1000 genomes]
rs8027544	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8040915	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
2	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
5	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
6	nsv904558	chr15:100019382-100171684	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	esv1798883	chr15:100124483-100153969	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100120800-100142600	Weak transcription	Ovary	ovary
2	chr15:100129400-100155200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr15:100130000-100153000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr15:100131400-100142600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr15:100132600-100154800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr15:100132800-100153200	Weak transcription	HepG2	liver
7	chr15:100133000-100142600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr15:100133000-100143600	Weak transcription	Brain Anterior Caudate	brain
9	chr15:100133000-100144400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:100133000-100145400	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr15:100133000-100145600	Weak transcription	NH-A	brain
12	chr15:100133000-100153400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr15:100133000-100155000	Weak transcription	Esophagus	oesophagus
14	chr15:100133000-100157000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:100133000-100159200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:100133000-100159200	Weak transcription	A549	lung
17	chr15:100133200-100144200	Weak transcription	HUVEC	blood vessel
18	chr15:100133200-100148000	Weak transcription	Stomach Mucosa	stomach
19	chr15:100133800-100143600	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr15:100133800-100146000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr15:100135000-100149200	Weak transcription	Pancreas	Pancrea
22	chr15:100135400-100145000	Weak transcription	Aorta	Aorta
23	chr15:100135600-100152000	Weak transcription	HSMMtube	muscle
24	chr15:100135800-100153600	Weak transcription	Colon Smooth Muscle	Colon
25	chr15:100137800-100143800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr15:100138200-100143800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:100138400-100145400	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr15:100138600-100142800	Strong transcription	Primary hematopoietic stem cells	blood
29	chr15:100138800-100143600	ZNF genes & repeats	GM12878-XiMat	blood
30	chr15:100138800-100149200	Weak transcription	Fetal Brain Male	brain
31	chr15:100139000-100153800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr15:100139800-100142800	Strong transcription	Fetal Thymus	thymus
33	chr15:100140000-100153400	Weak transcription	Fetal Intestine Small	intestine
34	chr15:100140200-100142800	Strong transcription	HMEC	breast
35	chr15:100140200-100145000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr15:100140600-100145400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr15:100140600-100147200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
38	chr15:100140800-100142600	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr15:100140800-100142800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr15:100140800-100144800	Weak transcription	NHEK	skin
41	chr15:100140800-100148000	Weak transcription	Duodenum Mucosa	Duodenum
42	chr15:100140800-100148000	Weak transcription	Fetal Brain Female	brain
43	chr15:100140800-100153400	Weak transcription	Fetal Intestine Large	intestine
44	chr15:100141000-100143000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:100141000-100144000	Weak transcription	Osteobl	bone
46	chr15:100141000-100147000	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr15:100141000-100148000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr15:100141000-100150800	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr15:100141000-100152600	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr15:100141000-100154800	Weak transcription	Brain Hippocampus Middle	brain

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