Variant report

Variant	rs6426928
Chromosome Location	chr1:165630249-165630250
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	chr1:165623129..165624677-chr1:165628982..165631054,2	K562	blood:

Extended variants
information (count: 21 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10918234	0.92[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1577847	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2348730	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6426927	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6426930	0.94[CEU][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6667681	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6668102	0.91[ASW][hapmap];0.95[CEU][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.97[LWK][hapmap];0.90[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6681	1.00[CHD][hapmap]
rs6690818	0.95[CEU][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];0.91[LWK][hapmap];0.90[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7355084	1.00[CHD][hapmap]
rs7511691	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7516126	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7518869	0.92[CEU][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7533986	0.95[CEU][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7534359	0.95[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7544840	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7551594	0.91[ASW][hapmap];0.95[CEU][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.97[LWK][hapmap];0.90[MEX][hapmap];0.98[MKK][hapmap];0.88[TSI][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7553712	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7554409	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9333372	1.00[CHD][hapmap]
rs9333379	1.00[CHD][hapmap]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs6426928	NUF2	cis	cerebellum	SCAN
rs6426928	B4GALT3	cis	parietal	SCAN
rs6426928	MGST3	cis	parietal	SCAN
rs6426928	ALDH9A1	cis	lymphoblastoid	seeQTL
rs6426928	ALDH9A1	cis	cerebellum	SCAN

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165603800-165631200	Weak transcription	Fetal Kidney	kidney
2	chr1:165604800-165632200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:165606200-165659600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:165610600-165630800	Weak transcription	Small Intestine	intestine
5	chr1:165615600-165631000	Weak transcription	NHEK	skin
6	chr1:165615800-165631000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr1:165616400-165632000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr1:165617000-165631200	Strong transcription	Fetal Stomach	stomach
9	chr1:165618000-165631000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr1:165618000-165638600	Strong transcription	Cortex derived primary cultured neurospheres	brain
11	chr1:165618200-165652400	Strong transcription	Fetal Muscle Leg	muscle
12	chr1:165618600-165634800	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr1:165618800-165630800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr1:165618800-165638600	Strong transcription	Fetal Intestine Large	intestine
15	chr1:165619000-165635000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr1:165619000-165642600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr1:165619000-165643600	Strong transcription	Fetal Muscle Trunk	muscle
18	chr1:165619200-165630800	Strong transcription	NHDF-Ad	bronchial
19	chr1:165619200-165634200	Strong transcription	Stomach Smooth Muscle	stomach
20	chr1:165619200-165648800	Strong transcription	Liver	Liver
21	chr1:165619400-165636200	Strong transcription	Adipose Nuclei	Adipose
22	chr1:165619600-165642600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr1:165619600-165653200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr1:165620800-165631000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr1:165620800-165631200	Weak transcription	HepG2	liver
26	chr1:165621000-165630800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:165621000-165634400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr1:165621600-165632200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr1:165622600-165630600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr1:165622800-165631200	Weak transcription	A549	lung
31	chr1:165623400-165653000	Weak transcription	Stomach Mucosa	stomach
32	chr1:165623800-165631200	Weak transcription	K562	blood
33	chr1:165623800-165631800	Weak transcription	HUVEC	blood vessel
34	chr1:165623800-165636400	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr1:165624400-165630800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr1:165624600-165632800	Weak transcription	Colonic Mucosa	Colon
37	chr1:165624800-165631000	Weak transcription	Hela-S3	cervix
38	chr1:165625000-165632200	Weak transcription	Brain Angular Gyrus	brain
39	chr1:165625600-165631000	Weak transcription	NH-A	brain
40	chr1:165625600-165631800	Weak transcription	Fetal Brain Male	brain
41	chr1:165626200-165630600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr1:165626400-165631000	Weak transcription	HSMMtube	muscle
43	chr1:165627000-165630800	Weak transcription	Pancreas	Pancrea
44	chr1:165627200-165637400	Weak transcription	Right Ventricle	heart
45	chr1:165627400-165631200	Weak transcription	Fetal Heart	heart
46	chr1:165627400-165631600	Weak transcription	HMEC	breast
47	chr1:165627600-165632000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr1:165627600-165636600	Weak transcription	Psoas Muscle	Psoas
49	chr1:165627800-165630600	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr1:165628000-165633200	Weak transcription	Colon Smooth Muscle	Colon

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