Variant report

Variant	rs6719686
Chromosome Location	chr2:160908292-160908293
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:160902213..160904141-chr2:160907453..160910276,2	MCF-7	breast:

Extended variants
information (count: 105 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10497205	1.00[YRI][hapmap]
rs10497209	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10497210	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs10497213	0.84[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs10929965	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10929966	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12987602	0.82[ASN][1000 genomes]
rs13001911	0.91[JPT][hapmap]
rs1511218	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16844715	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16844848	0.90[JPT][hapmap]
rs16844863	0.90[JPT][hapmap]
rs16844866	0.91[JPT][hapmap]
rs17216980	0.96[CEU][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17218566	0.84[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs17231342	1.00[YRI][hapmap]
rs17231993	1.00[YRI][hapmap]
rs17241282	0.90[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs17241792	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17241973	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17341301	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17828159	1.00[YRI][hapmap]
rs17829873	1.00[YRI][hapmap]
rs17830307	1.00[YRI][hapmap]
rs17830558	1.00[YRI][hapmap]
rs17830755	0.80[ASN][1000 genomes]
rs17830904	0.90[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs17831161	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17831191	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17831251	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17831329	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1870102	0.81[AFR][1000 genomes]
rs2124969	0.92[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2175416	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2198918	0.87[CEU][hapmap];0.91[JPT][hapmap]
rs2221808	1.00[YRI][hapmap]
rs2305818	0.88[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs2305819	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs2715928	0.84[CHB][hapmap]
rs34248629	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3749114	1.00[YRI][hapmap]
rs3749117	0.90[JPT][hapmap];1.00[YRI][hapmap]
rs3749119	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs3792168	1.00[YRI][hapmap]
rs3792175	1.00[YRI][hapmap]
rs3792192	0.90[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs3828324	1.00[YRI][hapmap]
rs4233681	0.82[ASN][1000 genomes]
rs4292050	0.96[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4363984	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4520993	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4520994	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4637057	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4664308	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4665138	0.90[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs4665140	0.90[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs4665141	0.91[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs4665147	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4665148	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4665161	0.91[JPT][hapmap]
rs4665162	0.85[CEU][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs56040145	0.83[AFR][1000 genomes]
rs56172865	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56293836	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56296079	0.83[AFR][1000 genomes]
rs56297666	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58354887	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59019419	0.85[AFR][1000 genomes]
rs59541669	0.85[AFR][1000 genomes]
rs62175384	0.83[AFR][1000 genomes]
rs62175388	0.83[AFR][1000 genomes]
rs62175391	0.83[AFR][1000 genomes]
rs62175396	0.83[AFR][1000 genomes]
rs62175487	0.82[ASN][1000 genomes]
rs62175488	0.82[ASN][1000 genomes]
rs62175515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62175517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62175552	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62175559	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62177860	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs66484345	0.82[ASN][1000 genomes]
rs66667042	0.80[ASN][1000 genomes]
rs6705574	0.88[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs6707388	0.81[ASN][1000 genomes]
rs6707458	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6722275	0.90[JPT][hapmap];1.00[YRI][hapmap];0.82[ASN][1000 genomes]
rs6731260	0.96[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6732107	0.91[JPT][hapmap]
rs6739867	0.96[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6744567	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6759836	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6759924	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72621699	0.95[ASN][1000 genomes]
rs72621702	0.88[ASN][1000 genomes]
rs72979963	0.83[AFR][1000 genomes]
rs72982036	0.83[AFR][1000 genomes]
rs72982044	0.83[AFR][1000 genomes]
rs7563607	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7567781	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7586751	0.83[AFR][1000 genomes]
rs7593593	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs877200	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs925410	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs979129	1.00[YRI][hapmap]
rs983916	1.00[YRI][hapmap];0.83[AFR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6719686	LY75	cis	Esophagus Mucosa	GTEx

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:160881200-160912000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr2:160881200-160913400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:160884000-160911600	Weak transcription	Fetal Kidney	kidney
4	chr2:160895200-160911600	Weak transcription	HMEC	breast
5	chr2:160896800-160908600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr2:160901400-160911800	Weak transcription	Adipose Nuclei	Adipose
7	chr2:160901600-160911600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:160903000-160913400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr2:160903800-160911600	Weak transcription	Esophagus	oesophagus
10	chr2:160907000-160909400	Enhancers	Colon Smooth Muscle	Colon
11	chr2:160907200-160909200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr2:160907200-160909600	Enhancers	Small Intestine	intestine
13	chr2:160907400-160908400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr2:160907400-160908400	Weak transcription	Fetal Intestine Small	intestine
15	chr2:160907400-160908800	Enhancers	Rectal Smooth Muscle	rectum
16	chr2:160907400-160909200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr2:160907600-160908400	Bivalent Enhancer	Muscle Satellite Cultured Cells	--
18	chr2:160907600-160909200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr2:160907600-160909200	Enhancers	Stomach Smooth Muscle	stomach
20	chr2:160907600-160909400	Enhancers	Osteobl	bone
21	chr2:160907600-160910200	Enhancers	HUVEC	blood vessel
22	chr2:160907800-160908400	Enhancers	Aorta	Aorta
23	chr2:160907800-160908400	Enhancers	Fetal Stomach	stomach
24	chr2:160907800-160908600	Enhancers	Ovary	ovary
25	chr2:160907800-160908800	Enhancers	NH-A	brain
26	chr2:160907800-160909000	Enhancers	Left Ventricle	heart
27	chr2:160907800-160909000	Enhancers	NHDF-Ad	bronchial
28	chr2:160907800-160909200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr2:160907800-160909600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr2:160907800-160909600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr2:160907800-160909800	Enhancers	NHEK	skin
32	chr2:160907800-160910400	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr2:160908000-160908400	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr2:160908000-160908400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr2:160908000-160908600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr2:160908000-160909000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr2:160908000-160909200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr2:160908000-160909200	Enhancers	HSMMtube	muscle
39	chr2:160908000-160910200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr2:160908000-160910400	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr2:160908200-160909400	Enhancers	iPS-20b Cell Line	embryonic stem cell
42	chr2:160908200-160909800	Enhancers	Fetal Intestine Large	intestine

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