Variant report

Variant	rs58851861
Chromosome Location	chr15:49412478-49412479
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	chr15:49411597..49414274-chr15:49439381..49441889,2	K562	blood:
2	chr15:49370486..49372078-chr15:49411477..49414242,2	K562	blood:

Extended variants
information (count: 43 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11630937	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11632386	0.83[EUR][1000 genomes]
rs11633810	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12437486	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12438777	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs16962111	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1864299	0.81[AMR][1000 genomes]
rs2247003	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2247517	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2264508	0.86[EUR][1000 genomes]
rs2289390	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2439133	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2457229	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28566064	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs28653543	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2899431	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3098613	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3098619	0.86[EUR][1000 genomes]
rs3098621	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3105858	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3105864	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3105866	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4393519	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4774537	0.81[AMR][1000 genomes]
rs481466	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs489813	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs507054	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs520495	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs604765	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs609434	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs612803	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs619045	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62009779	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs626295	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs633333	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6493356	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6493357	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs66499252	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs672777	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs694882	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7162602	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7169443	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs8182081	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs58851861	GALK2	Cis_1M	lymphoblastoid	RTeQTL
rs58851861	COPS2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49388800-49418800	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr15:49388800-49434800	Weak transcription	Small Intestine	intestine
3	chr15:49393600-49413200	Weak transcription	HMEC	breast
4	chr15:49395400-49419000	Weak transcription	Fetal Kidney	kidney
5	chr15:49395600-49426400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr15:49396000-49419600	Weak transcription	NHEK	skin
7	chr15:49396400-49418800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr15:49398600-49427600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:49399200-49414600	Weak transcription	HUVEC	blood vessel
10	chr15:49403000-49417200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr15:49403000-49434600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr15:49403200-49413000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:49403200-49423400	Weak transcription	Psoas Muscle	Psoas
14	chr15:49403400-49419600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr15:49403400-49440200	Weak transcription	Pancreas	Pancrea
16	chr15:49403600-49423600	Weak transcription	Esophagus	oesophagus
17	chr15:49403600-49432200	Weak transcription	Fetal Stomach	stomach
18	chr15:49403600-49435200	Weak transcription	Aorta	Aorta
19	chr15:49403600-49435200	Weak transcription	Gastric	stomach
20	chr15:49403600-49435400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr15:49403800-49417400	Weak transcription	HUES6 Cell Line	embryonic stem cell
22	chr15:49403800-49419400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr15:49403800-49433200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:49404000-49419800	Weak transcription	NHLF	lung
25	chr15:49404400-49419800	Weak transcription	Fetal Muscle Trunk	muscle
26	chr15:49404600-49424000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr15:49404800-49415400	Weak transcription	Hela-S3	cervix
28	chr15:49404800-49417200	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr15:49404800-49417600	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr15:49404800-49419000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr15:49404800-49419000	Weak transcription	Primary T cells from cord blood	blood
32	chr15:49404800-49419000	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr15:49404800-49419200	Weak transcription	Brain Angular Gyrus	brain
34	chr15:49404800-49419400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:49404800-49419400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr15:49404800-49419400	Weak transcription	Brain Cingulate Gyrus	brain
37	chr15:49404800-49419600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:49404800-49419600	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr15:49404800-49419600	Weak transcription	Brain Hippocampus Middle	brain
40	chr15:49404800-49419600	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr15:49404800-49419600	Weak transcription	Ovary	ovary
42	chr15:49404800-49419600	Weak transcription	Stomach Smooth Muscle	stomach
43	chr15:49404800-49419800	Weak transcription	Left Ventricle	heart
44	chr15:49404800-49419800	Weak transcription	Thymus	Thymus
45	chr15:49404800-49423400	Weak transcription	HepG2	liver
46	chr15:49404800-49425600	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr15:49404800-49434600	Weak transcription	Right Ventricle	heart
48	chr15:49404800-49435000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr15:49405000-49414000	Weak transcription	HSMM	muscle
50	chr15:49405000-49416800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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