Variant report

Variant	rs4671072
Chromosome Location	chr2:64087027-64087028
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:64066782..64070718-chr2:64080924..64091365,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169764	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10166971	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10175674	0.89[CHB][hapmap]
rs12466966	0.90[EUR][1000 genomes]
rs12468093	0.82[EUR][1000 genomes]
rs12474366	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12475294	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12988017	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]
rs12990604	0.90[EUR][1000 genomes]
rs12993544	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12997303	0.83[EUR][1000 genomes]
rs12999675	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13005218	0.83[EUR][1000 genomes]
rs13007342	0.83[EUR][1000 genomes]
rs13007731	0.83[EUR][1000 genomes]
rs13009774	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];0.95[TSI][hapmap];0.88[EUR][1000 genomes]
rs13010817	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13014781	0.86[EUR][1000 genomes]
rs13023542	0.85[EUR][1000 genomes]
rs13025640	0.86[EUR][1000 genomes]
rs13028805	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13034260	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1345479	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1437455	0.83[EUR][1000 genomes]
rs1545196	0.83[EUR][1000 genomes]
rs17555655	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17562312	0.87[EUR][1000 genomes]
rs17620012	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17701685	0.83[EUR][1000 genomes]
rs17701709	0.83[EUR][1000 genomes]
rs17752683	0.83[EUR][1000 genomes]
rs2287361	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34043307	0.85[EUR][1000 genomes]
rs34145077	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34196086	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34200806	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34239752	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34512058	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34900788	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35058898	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35122209	0.83[EUR][1000 genomes]
rs35247801	0.83[EUR][1000 genomes]
rs35253921	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35521527	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35552326	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35648996	0.85[EUR][1000 genomes]
rs35810427	0.87[EUR][1000 genomes]
rs35972278	0.89[EUR][1000 genomes]
rs35975566	0.90[EUR][1000 genomes]
rs36099158	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]
rs3815616	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3934536	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4075010	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4482470	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4544421	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4599090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[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];0.87[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[ASN][1000 genomes]
rs4671537	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4671538	0.84[EUR][1000 genomes]
rs66476638	0.90[EUR][1000 genomes]
rs66535980	0.83[EUR][1000 genomes]
rs66595136	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66650505	0.90[EUR][1000 genomes]
rs66660401	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs66993685	0.83[EUR][1000 genomes]
rs6710230	0.84[MEX][hapmap]
rs67366434	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67962955	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs71422402	0.80[EUR][1000 genomes]
rs72808216	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72808218	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72808231	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72808248	0.90[EUR][1000 genomes]
rs72808254	0.90[EUR][1000 genomes]
rs72808262	0.90[EUR][1000 genomes]
rs72808287	0.82[EUR][1000 genomes]
rs874695	0.83[EUR][1000 genomes]
rs893779	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes]

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:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:64070200-64103000	Weak transcription	Gastric	stomach
2	chr2:64077000-64089000	Weak transcription	Fetal Brain Male	brain
3	chr2:64077000-64100200	Weak transcription	Ovary	ovary
4	chr2:64078000-64108000	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr2:64081800-64089800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr2:64081800-64100600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr2:64082200-64089600	Weak transcription	Stomach Mucosa	stomach
8	chr2:64082200-64091400	Strong transcription	H1 Cell Line	embryonic stem cell
9	chr2:64082200-64092400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr2:64082200-64100200	Weak transcription	Brain Cingulate Gyrus	brain
11	chr2:64082200-64110000	Weak transcription	Colon Smooth Muscle	Colon
12	chr2:64082600-64087600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr2:64082600-64088800	Strong transcription	HepG2	liver
14	chr2:64082600-64089400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr2:64082800-64087400	Strong transcription	Fetal Muscle Trunk	muscle
16	chr2:64083000-64087600	Strong transcription	Fetal Intestine Large	intestine
17	chr2:64083000-64089400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr2:64083000-64089600	Strong transcription	Muscle Satellite Cultured Cells	--
19	chr2:64083000-64123000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr2:64083000-64129200	Strong transcription	Monocytes-CD14+_RO01746	blood
21	chr2:64083200-64087600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr2:64083200-64089600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr2:64083200-64089600	Strong transcription	NH-A	brain
24	chr2:64083200-64090200	Strong transcription	Fetal Muscle Leg	muscle
25	chr2:64083200-64091600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr2:64083200-64092000	Strong transcription	Fetal Lung	lung
27	chr2:64083200-64097800	Weak transcription	Right Atrium	heart
28	chr2:64083200-64110200	Weak transcription	Small Intestine	intestine
29	chr2:64083200-64110600	Weak transcription	Pancreas	Pancrea
30	chr2:64083400-64087400	Strong transcription	Primary B cells from peripheral blood	blood
31	chr2:64083400-64088400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
32	chr2:64083400-64089600	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr2:64083400-64091600	Strong transcription	H9 Cell Line	embryonic stem cell
34	chr2:64083600-64087200	Strong transcription	Cortex derived primary cultured neurospheres	brain
35	chr2:64083600-64087600	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr2:64083600-64088400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr2:64083600-64088400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr2:64083600-64088800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
39	chr2:64083600-64089600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
40	chr2:64083600-64092000	Strong transcription	Placenta	Placenta
41	chr2:64083600-64095400	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr2:64083800-64087800	Strong transcription	Skeletal Muscle Male	skeletal muscle
43	chr2:64083800-64088200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr2:64083800-64089000	Strong transcription	HUES64 Cell Line	embryonic stem cell
45	chr2:64083800-64089400	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr2:64084000-64088400	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr2:64084000-64092000	Strong transcription	Adipose Nuclei	Adipose
48	chr2:64084000-64095600	Genic enhancers	Dnd41	blood
49	chr2:64084200-64087200	Strong transcription	Duodenum Smooth Muscle	Duodenum
50	chr2:64084200-64088000	Strong transcription	Skeletal Muscle Female	skeletal muscle

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