Variant report

Variant	rs3777466
Chromosome Location	chr6:131268226-131268227
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	chr6:131256677..131258531-chr6:131266868..131268391,2	K562	blood:

Extended variants
information (count: 67 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs12193574	0.85[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12526896	0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12530288	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12664445	0.85[ASN][1000 genomes]
rs17180687	0.90[MKK][hapmap];0.82[YRI][hapmap]
rs2068147	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2183967	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs2275509	0.86[ASN][1000 genomes]
rs3777434	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs3777435	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs3777436	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs3777440	1.00[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.95[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3777441	0.96[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3777442	1.00[ASW][hapmap];0.89[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.95[GIH][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3777455	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3777458	0.95[CHB][hapmap];0.88[CHD][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs3777461	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777462	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777465	1.00[ASN][1000 genomes]
rs3798249	0.96[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3798250	0.96[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3822861	0.85[ASN][1000 genomes]
rs3822863	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4323333	0.89[ASN][1000 genomes]
rs4357159	0.90[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs4895901	1.00[YRI][hapmap]
rs4895903	0.82[YRI][hapmap]
rs4895907	0.82[YRI][hapmap]
rs4895908	0.82[YRI][hapmap]
rs4897468	0.82[JPT][hapmap]
rs4897471	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4897472	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs4897473	0.88[MKK][hapmap]
rs4897474	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4897484	0.88[MKK][hapmap]
rs6569707	0.81[CHB][hapmap]
rs6569708	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs6569715	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6908917	0.84[CHD][hapmap]
rs6919007	0.86[JPT][hapmap]
rs6928920	0.82[YRI][hapmap]
rs6941712	0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7742376	0.84[CHD][hapmap]
rs7760965	0.86[JPT][hapmap]
rs7763584	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7773290	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7775013	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs9321257	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9321260	0.95[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs933063	0.86[JPT][hapmap]
rs9375779	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9375781	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9375782	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9375783	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9375785	0.83[CHB][hapmap];0.84[CHD][hapmap]
rs9375789	0.82[CHD][hapmap]
rs9388861	0.86[JPT][hapmap]
rs9388863	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs9388864	0.84[ASN][1000 genomes]
rs9388869	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9398967	0.81[CHD][hapmap]
rs9402299	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9483185	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9483192	0.90[ASN][1000 genomes]
rs9483201	0.88[ASN][1000 genomes]
rs9492755	0.91[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs9492756	0.84[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3777466	ALDH8A1	cis	cerebellum	SCAN
rs3777466	EPB41L2	cis	parietal	SCAN

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131220600-131281200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr6:131244200-131279000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr6:131253000-131272800	Weak transcription	Dnd41	blood
4	chr6:131253000-131302200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:131255000-131274600	Weak transcription	Fetal Stomach	stomach
6	chr6:131255200-131276000	Weak transcription	Left Ventricle	heart
7	chr6:131255400-131276200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:131255400-131288800	Weak transcription	Fetal Kidney	kidney
9	chr6:131255800-131276200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:131255800-131277400	Weak transcription	Psoas Muscle	Psoas
11	chr6:131256000-131279400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:131257200-131270200	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:131257400-131281800	Weak transcription	Colon Smooth Muscle	Colon
14	chr6:131260000-131286200	Weak transcription	HSMMtube	muscle
15	chr6:131263600-131272800	Weak transcription	Fetal Muscle Trunk	muscle
16	chr6:131264400-131269200	Enhancers	HepG2	liver
17	chr6:131264800-131277800	Weak transcription	Gastric	stomach
18	chr6:131265000-131269000	Enhancers	NHLF	lung
19	chr6:131265600-131276000	Weak transcription	Duodenum Mucosa	Duodenum
20	chr6:131265800-131274400	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:131266000-131269400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr6:131266000-131272600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr6:131266000-131275000	Weak transcription	A549	lung
24	chr6:131266000-131280600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:131266000-131283800	Weak transcription	Lung	lung
26	chr6:131266000-131287600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr6:131266600-131268800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr6:131266600-131274400	Weak transcription	Ovary	ovary
29	chr6:131266800-131268400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:131266800-131268600	Weak transcription	Fetal Intestine Large	intestine
31	chr6:131266800-131270200	Weak transcription	NHEK	skin
32	chr6:131266800-131274400	Weak transcription	Aorta	Aorta
33	chr6:131266800-131277200	Weak transcription	Brain Cingulate Gyrus	brain
34	chr6:131266800-131287200	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr6:131267000-131270800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr6:131267000-131286000	Weak transcription	Brain Angular Gyrus	brain
37	chr6:131267000-131294800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr6:131267200-131268400	Enhancers	Osteobl	bone
39	chr6:131267200-131268600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:131267200-131269000	Enhancers	HUVEC	blood vessel
41	chr6:131267200-131273600	Weak transcription	Fetal Intestine Small	intestine
42	chr6:131267200-131277000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr6:131267200-131277200	Weak transcription	Small Intestine	intestine
44	chr6:131267200-131281200	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr6:131267200-131282200	Weak transcription	Primary B cells from peripheral blood	blood
46	chr6:131267400-131272800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr6:131267400-131273000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr6:131267400-131279600	Weak transcription	HMEC	breast
49	chr6:131267400-131280200	Weak transcription	Brain Anterior Caudate	brain
50	chr6:131267400-131281600	Weak transcription	GM12878-XiMat	blood

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