Variant report

Variant	rs36099158
Chromosome Location	chr2:64073887-64073888
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	chr2:64066407..64070482-chr2:64071096..64075382,10	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169764	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10166971	0.95[CEU][hapmap];1.00[CHB][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.93[ASN][1000 genomes]
rs10175674	0.89[CHB][hapmap]
rs12466966	0.87[EUR][1000 genomes]
rs12474366	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12475294	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12988017	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12990604	0.88[EUR][1000 genomes]
rs12993544	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12997303	0.81[EUR][1000 genomes]
rs12999675	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13007342	0.81[EUR][1000 genomes]
rs13007731	0.81[EUR][1000 genomes]
rs13009774	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.86[EUR][1000 genomes]
rs13010817	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13014781	0.84[EUR][1000 genomes]
rs13023542	0.83[EUR][1000 genomes]
rs13025640	0.84[EUR][1000 genomes]
rs13028805	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13034260	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1345479	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1437455	0.81[EUR][1000 genomes]
rs17555655	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17562312	0.85[EUR][1000 genomes]
rs17620012	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17701685	0.81[EUR][1000 genomes]
rs17701709	0.81[EUR][1000 genomes]
rs17752683	0.81[EUR][1000 genomes]
rs2287361	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34043307	0.82[EUR][1000 genomes]
rs34145077	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34196086	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34200806	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34239752	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34512058	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34900788	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35058898	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35247801	0.81[EUR][1000 genomes]
rs35253921	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35521527	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35552326	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35648996	0.83[EUR][1000 genomes]
rs35810427	0.85[EUR][1000 genomes]
rs35972278	0.87[EUR][1000 genomes]
rs35975566	0.88[EUR][1000 genomes]
rs3815616	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3934536	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4075010	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4482470	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4544421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4599090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4671072	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4671534	1.00[ASN][1000 genomes]
rs4671535	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[ASN][1000 genomes]
rs4671537	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4671538	0.82[EUR][1000 genomes]
rs66476638	0.87[EUR][1000 genomes]
rs66535980	0.81[EUR][1000 genomes]
rs66595136	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66650505	0.87[EUR][1000 genomes]
rs66660401	0.87[AFR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66993685	0.81[EUR][1000 genomes]
rs6710230	0.84[MEX][hapmap]
rs67366434	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67962955	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72808216	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72808218	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72808231	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72808248	0.88[EUR][1000 genomes]
rs72808254	0.87[EUR][1000 genomes]
rs72808262	0.88[EUR][1000 genomes]
rs874695	0.80[EUR][1000 genomes]
rs893779	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013375	chr2:63969820-64231550	ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:64067000-64075800	Active TSS	iPS-15b Cell Line	embryonic stem cell
2	chr2:64067000-64076400	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr2:64067400-64074000	Active TSS	H9 Cell Line	embryonic stem cell
4	chr2:64067600-64074000	Active TSS	Right Ventricle	heart
5	chr2:64069400-64074600	Transcr. at gene 5' and 3'	Dnd41	blood
6	chr2:64070000-64082800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr2:64070200-64076400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr2:64070200-64084600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr2:64070200-64103000	Weak transcription	Gastric	stomach
10	chr2:64070400-64075800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr2:64070600-64074400	Weak transcription	A549	lung
12	chr2:64070600-64076600	Enhancers	Brain Substantia Nigra	brain
13	chr2:64070600-64082800	Weak transcription	Fetal Stomach	stomach
14	chr2:64070600-64083800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr2:64070800-64075800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr2:64070800-64076000	Enhancers	Brain Hippocampus Middle	brain
17	chr2:64070800-64082600	Weak transcription	HUVEC	blood vessel
18	chr2:64071000-64074200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr2:64071000-64076200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
20	chr2:64071200-64074000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr2:64071200-64074600	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr2:64071200-64074600	Enhancers	HSMM	muscle
23	chr2:64071200-64075000	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr2:64071200-64075000	Weak transcription	Brain Germinal Matrix	brain
25	chr2:64071200-64076000	Weak transcription	Fetal Kidney	kidney
26	chr2:64071200-64076200	Weak transcription	Fetal Lung	lung
27	chr2:64071200-64076400	Weak transcription	Fetal Brain Male	brain
28	chr2:64071200-64080600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr2:64071400-64074000	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr2:64071400-64074400	Enhancers	HSMMtube	muscle
31	chr2:64071400-64074600	Enhancers	Brain Cingulate Gyrus	brain
32	chr2:64071600-64074800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr2:64071600-64076400	Weak transcription	Stomach Mucosa	stomach
34	chr2:64071800-64074000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
35	chr2:64071800-64074000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr2:64071800-64076600	Weak transcription	Fetal Intestine Large	intestine
37	chr2:64071800-64076800	Weak transcription	Duodenum Mucosa	Duodenum
38	chr2:64071800-64080200	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr2:64071800-64080600	Weak transcription	Pancreas	Pancrea
40	chr2:64072000-64074000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
41	chr2:64072000-64074000	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr2:64072000-64074400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr2:64072000-64075000	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr2:64072000-64076000	Weak transcription	NH-A	brain
45	chr2:64072000-64076200	Weak transcription	Fetal Brain Female	brain
46	chr2:64072000-64076600	Weak transcription	Primary hematopoietic stem cells	blood
47	chr2:64072000-64076600	Weak transcription	K562	blood
48	chr2:64072000-64080600	Weak transcription	Lung	lung
49	chr2:64072000-64081200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr2:64072000-64082800	Weak transcription	Fetal Muscle Trunk	muscle

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