Variant report

Variant	rs17341301
Chromosome Location	chr2:160902420-160902421
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:160896139..160898226-chr2:160900931..160903215,2	MCF-7	breast:
2	chr2:160902213..160904141-chr2:160907453..160910276,2	MCF-7	breast:
3	chr11:75109670..75111954-chr2:160901728..160904250,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000149273	Chromatin interaction
ENSG00000206941	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10497213	0.82[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs10929965	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10929966	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12987602	0.82[ASN][1000 genomes]
rs13001911	0.86[JPT][hapmap]
rs1511218	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16844715	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16844848	0.86[JPT][hapmap]
rs16844863	0.86[JPT][hapmap]
rs16844866	0.86[JPT][hapmap]
rs17216980	0.96[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17218566	0.85[CEU][hapmap];0.86[JPT][hapmap];0.89[TSI][hapmap]
rs17241282	0.88[CHD][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs17241792	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17241973	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17830755	0.80[ASN][1000 genomes]
rs17830904	0.88[CHD][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs17831161	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]
rs17831191	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17831251	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17831329	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2124969	0.92[CEU][hapmap];0.81[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes]
rs2175416	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2198918	0.87[CEU][hapmap];0.86[JPT][hapmap]
rs2305818	0.88[CEU][hapmap];0.86[JPT][hapmap];0.92[TSI][hapmap]
rs2305819	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs2715928	0.84[CHB][hapmap];0.87[CHD][hapmap]
rs34248629	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3749117	0.85[CHD][hapmap];0.85[JPT][hapmap]
rs3749119	0.81[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs3792192	0.88[CHD][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs4233681	0.82[ASN][1000 genomes]
rs4292050	0.96[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4363984	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4520993	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4520994	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4637057	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4664308	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4665138	0.88[CHD][hapmap];0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs4665140	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs4665141	0.85[JPT][hapmap];0.80[ASN][1000 genomes]
rs4665147	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4665148	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4665161	0.86[JPT][hapmap]
rs4665162	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs56172865	0.85[EUR][1000 genomes]
rs56293836	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56297666	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58354887	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62175487	0.82[ASN][1000 genomes]
rs62175488	0.82[ASN][1000 genomes]
rs62175515	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62175517	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62175552	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62175559	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62177860	0.88[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];0.88[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs6707388	0.81[ASN][1000 genomes]
rs6707458	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6719686	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]
rs6722275	0.88[CHD][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs6731260	0.96[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.94[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6732107	0.86[JPT][hapmap]
rs6739867	0.96[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6744567	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6759836	1.00[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6759924	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72621699	0.95[ASN][1000 genomes]
rs72621702	0.88[ASN][1000 genomes]
rs7563607	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7593593	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs877200	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs925410	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs17341301	MXRA7	cis	parietal	SCAN
rs17341301	LY75	cis	Esophagus Mucosa	GTEx
rs17341301	TANK	cis	parietal	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:160828600-160907200	Weak transcription	Small Intestine	intestine
2	chr2:160879400-160908000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr2:160879800-160907800	Weak transcription	NHEK	skin
4	chr2:160881200-160912000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr2:160881200-160913400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:160884000-160911600	Weak transcription	Fetal Kidney	kidney
7	chr2:160888000-160902800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr2:160890600-160907800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr2:160891200-160905600	Weak transcription	HSMM	muscle
10	chr2:160895200-160911600	Weak transcription	HMEC	breast
11	chr2:160896200-160907800	Weak transcription	Colonic Mucosa	Colon
12	chr2:160896400-160907800	Weak transcription	Aorta	Aorta
13	chr2:160896800-160908600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr2:160897000-160907800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr2:160897600-160907000	Weak transcription	Colon Smooth Muscle	Colon
16	chr2:160897600-160907400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr2:160897600-160907600	Weak transcription	Stomach Smooth Muscle	stomach
18	chr2:160898000-160903200	Strong transcription	Fetal Intestine Small	intestine
19	chr2:160899000-160903600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr2:160899000-160907600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr2:160899200-160907800	Weak transcription	NHDF-Ad	bronchial
22	chr2:160899800-160907600	Weak transcription	HUVEC	blood vessel
23	chr2:160900000-160907800	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr2:160900200-160907800	Weak transcription	NH-A	brain
25	chr2:160900200-160908000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr2:160900400-160907800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr2:160900400-160908000	Weak transcription	HSMMtube	muscle
28	chr2:160900600-160907800	Weak transcription	Fetal Stomach	stomach
29	chr2:160901400-160903000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr2:160901400-160911800	Weak transcription	Adipose Nuclei	Adipose
31	chr2:160901600-160906800	Weak transcription	Duodenum Mucosa	Duodenum
32	chr2:160901600-160907800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr2:160901600-160907800	Weak transcription	Ovary	ovary
34	chr2:160901600-160908000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr2:160901600-160911600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr2:160902000-160903800	Strong transcription	Esophagus	oesophagus
37	chr2:160902200-160907200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr2:160902200-160908000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr2:160902200-160908200	Weak transcription	Fetal Intestine Large	intestine
40	chr2:160902400-160908000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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