Variant report

Variant	rs17572438
Chromosome Location	chr6:37247500-37247501
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	chr6:37246383..37248879-chr6:37249082..37251574,2	MCF-7	breast:
2	chr6:37224406..37227467-chr6:37245556..37248397,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172738	Chromatin interaction
ENSG00000065491	Chromatin interaction

Extended variants
information (count: 90 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs11752265	0.82[ASN][1000 genomes]
rs1224289	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1224384	0.82[ASN][1000 genomes]
rs149702	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149703	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149704	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149705	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149706	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149707	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149708	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149710	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149711	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149712	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149714	0.95[ASN][1000 genomes]
rs149715	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149716	0.81[CEU][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149718	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1564502	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs166394	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195370	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs195372	0.95[ASN][1000 genomes]
rs195412	0.95[ASN][1000 genomes]
rs195421	0.88[CEU][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195422	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195423	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195424	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195425	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195426	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195427	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195742	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195743	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs195744	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs195745	0.98[ASN][1000 genomes]
rs195747	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs195748	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[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195750	0.80[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs195751	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195753	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[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195754	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs195756	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195757	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195758	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs195759	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs195763	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2008782	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2144408	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2295244	1.00[JPT][hapmap]
rs2622884	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2622892	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2622900	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs262899	0.91[CHD][hapmap];1.00[JPT][hapmap]
rs262920	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs262922	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs262923	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs262924	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs262925	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs262939	1.00[JPT][hapmap]
rs262942	1.00[JPT][hapmap]
rs2748332	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2842618	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs398739	0.82[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs410183	0.83[ASN][1000 genomes]
rs410193	0.85[ASN][1000 genomes]
rs410711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41272216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4143230	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs418343	0.95[ASN][1000 genomes]
rs425267	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs437956	0.83[ASN][1000 genomes]
rs441745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs446344	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711491	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4711492	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714054	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4714056	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs517672	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60979150	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61357257	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457985	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6457986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6911196	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6917404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6917722	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760945	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7761532	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7775913	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17572438	TMEM217	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37226400-37250400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:37226600-37250000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:37226600-37259400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:37227000-37250000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr6:37227200-37250200	Weak transcription	Brain Angular Gyrus	brain
6	chr6:37227400-37247600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:37227800-37247800	Weak transcription	Fetal Lung	lung
8	chr6:37231400-37248200	Weak transcription	Fetal Heart	heart
9	chr6:37232400-37255000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr6:37233400-37250400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr6:37234000-37251800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:37235000-37249200	Weak transcription	Brain Germinal Matrix	brain
13	chr6:37235800-37249000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr6:37236000-37250200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr6:37237800-37251000	Weak transcription	Muscle Satellite Cultured Cells	--
16	chr6:37238800-37249600	Weak transcription	NH-A	brain
17	chr6:37238800-37250200	Weak transcription	A549	lung
18	chr6:37238800-37250200	Weak transcription	HUVEC	blood vessel
19	chr6:37238800-37250600	Weak transcription	NHDF-Ad	bronchial
20	chr6:37240200-37250000	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr6:37240400-37249800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr6:37240600-37250400	Weak transcription	Aorta	Aorta
23	chr6:37241200-37248800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr6:37241200-37251400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr6:37241800-37251000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr6:37242000-37281400	Weak transcription	Pancreatic Islets	Pancreatic Islet
27	chr6:37242600-37250200	Weak transcription	Fetal Kidney	kidney
28	chr6:37243200-37249200	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr6:37244000-37248600	Enhancers	Liver	Liver
30	chr6:37245200-37250400	Weak transcription	Pancreas	Pancrea
31	chr6:37245400-37250400	Weak transcription	Fetal Brain Male	brain
32	chr6:37245800-37248200	Enhancers	Skeletal Muscle Female	skeletal muscle
33	chr6:37246000-37256600	Genic enhancers	Dnd41	blood
34	chr6:37246000-37259600	Weak transcription	Small Intestine	intestine
35	chr6:37246200-37250000	Enhancers	Primary monocytes fromperipheralblood	blood
36	chr6:37246200-37253200	Strong transcription	NHEK	skin
37	chr6:37246200-37253800	Genic enhancers	Fetal Thymus	thymus
38	chr6:37246200-37256400	Strong transcription	HepG2	liver
39	chr6:37246400-37258000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr6:37246600-37252600	Enhancers	Psoas Muscle	Psoas
41	chr6:37246600-37255600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr6:37246600-37256200	Strong transcription	Primary T cells from cord blood	blood
43	chr6:37246600-37256200	Strong transcription	Primary T helper cells PMA-I stimulated	--
44	chr6:37246600-37256600	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr6:37246800-37247800	Strong transcription	Hela-S3	cervix
46	chr6:37246800-37249200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr6:37246800-37249600	Strong transcription	K562	blood
48	chr6:37246800-37250000	Weak transcription	Colonic Mucosa	Colon
49	chr6:37246800-37253000	Genic enhancers	Fetal Muscle Leg	muscle
50	chr6:37246800-37255600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--

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