Variant report

Variant	rs11070683
Chromosome Location	chr15:49388183-49388184
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10431775	0.81[AMR][1000 genomes]
rs1048975	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs10775139	0.84[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes]
rs11070682	0.92[CEU][hapmap];0.80[CHB][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11630937	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11633810	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs11637991	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11638215	0.80[CEU][hapmap]
rs11855740	0.81[CEU][hapmap]
rs11858114	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs12148348	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438175	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12438777	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12440709	0.81[AMR][1000 genomes]
rs12442679	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12898691	0.81[AMR][1000 genomes]
rs12898709	0.80[EUR][1000 genomes]
rs16962057	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16962111	0.85[ASN][1000 genomes]
rs2086256	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs2127241	0.89[JPT][hapmap]
rs2127242	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs2247003	0.80[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs2247517	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs2289390	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2413928	0.85[EUR][1000 genomes]
rs2413931	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2413935	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs2457228	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs2580926	0.90[JPT][hapmap]
rs2663088	0.89[JPT][hapmap]
rs2663089	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs28505357	0.81[EUR][1000 genomes]
rs28575845	0.81[EUR][1000 genomes]
rs28676698	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2899427	0.92[CEU][hapmap];0.80[CHB][hapmap];0.84[JPT][hapmap];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2899430	0.89[JPT][hapmap]
rs2899431	0.89[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs3098613	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs3098619	0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs3098620	0.80[CHB][hapmap];0.89[JPT][hapmap]
rs3098621	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs3105858	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap]
rs3105861	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs3105864	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs3105866	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.80[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4284578	0.81[CEU][hapmap]
rs4536401	0.81[CEU][hapmap]
rs4774537	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs4775795	0.81[CEU][hapmap]
rs481466	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs489813	0.94[CHB][hapmap];0.88[JPT][hapmap];0.87[YRI][hapmap];0.80[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs507054	0.80[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs568726	0.90[JPT][hapmap]
rs600863	0.84[JPT][hapmap]
rs604765	0.90[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.84[ASN][1000 genomes]
rs612803	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs619045	0.81[ASN][1000 genomes]
rs626295	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap]
rs626855	0.89[JPT][hapmap]
rs647118	0.89[JPT][hapmap]
rs6493346	0.80[CEU][hapmap]
rs6493356	0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs6493357	0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs679957	0.89[JPT][hapmap]
rs685172	0.90[JPT][hapmap]
rs694882	0.84[ASN][1000 genomes]
rs7162602	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7165264	0.81[CEU][hapmap]
rs7166847	0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs7167402	0.80[CEU][hapmap]
rs7179301	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8029914	0.80[CEU][hapmap]
rs877007	0.81[CEU][hapmap]
rs9920070	0.80[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11070683	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49376200-49395200	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr15:49376400-49397800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:49376600-49391600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:49376600-49397600	Weak transcription	NHLF	lung
5	chr15:49378800-49396800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr15:49381400-49397400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr15:49381400-49402400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr15:49381600-49398000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:49381800-49392400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr15:49381800-49395600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:49382400-49393200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr15:49382600-49402400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr15:49383400-49392800	Weak transcription	NH-A	brain
14	chr15:49384000-49392400	Weak transcription	HSMM	muscle
15	chr15:49385600-49403200	Weak transcription	Placenta	Placenta
16	chr15:49386400-49388400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr15:49386400-49395200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:49386400-49403400	Weak transcription	Brain Hippocampus Middle	brain
19	chr15:49386400-49404200	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr15:49386800-49391800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr15:49386800-49402600	Weak transcription	Gastric	stomach
22	chr15:49387000-49397400	Weak transcription	Primary T cells from cord blood	blood
23	chr15:49387200-49391400	Weak transcription	Primary B cells from cord blood	blood
24	chr15:49387200-49397600	Weak transcription	HSMMtube	muscle
25	chr15:49387200-49397800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr15:49387200-49402400	Weak transcription	Spleen	Spleen
27	chr15:49387200-49403000	Weak transcription	Dnd41	blood
28	chr15:49387400-49391400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr15:49387400-49404200	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr15:49387800-49389600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr15:49388000-49392800	Weak transcription	HMEC	breast

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