Variant report

Variant	rs11858917
Chromosome Location	chr15:49322437-49322438
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:49322333..49324034-chr15:49436776..49439133,2	K562	blood:

Extended variants
information (count: 19 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11542124	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11638215	0.80[ASN][1000 genomes]
rs11639379	0.91[ASN][1000 genomes]
rs12904344	0.81[ASN][1000 genomes]
rs12909616	0.80[ASN][1000 genomes]
rs12916287	0.92[ASN][1000 genomes]
rs16962017	0.82[AMR][1000 genomes]
rs2413928	0.91[ASN][1000 genomes]
rs4390538	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4423366	0.82[AMR][1000 genomes]
rs4435198	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6493346	0.82[ASN][1000 genomes]
rs7165264	0.80[ASN][1000 genomes]
rs7166261	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7183756	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8029751	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8033060	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs877007	0.80[ASN][1000 genomes]
rs935003	0.91[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11858917	GALK2	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49282800-49333400	Weak transcription	A549	lung
2	chr15:49283600-49337600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr15:49285000-49329000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:49289200-49336400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr15:49298000-49328400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr15:49298000-49328800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr15:49298200-49329800	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr15:49298600-49325200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr15:49298600-49329600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:49301400-49329000	Weak transcription	K562	blood
11	chr15:49303000-49327600	Weak transcription	Right Ventricle	heart
12	chr15:49308400-49327000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr15:49308400-49327600	Weak transcription	Dnd41	blood
14	chr15:49308600-49323000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr15:49308600-49326800	Weak transcription	Esophagus	oesophagus
16	chr15:49308600-49327000	Weak transcription	Gastric	stomach
17	chr15:49308800-49326800	Weak transcription	Fetal Thymus	thymus
18	chr15:49308800-49328200	Weak transcription	Small Intestine	intestine
19	chr15:49308800-49331800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr15:49308800-49334400	Weak transcription	Psoas Muscle	Psoas
21	chr15:49309200-49327600	Weak transcription	NHEK	skin
22	chr15:49310000-49328400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr15:49310600-49323600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr15:49310600-49324400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr15:49311200-49324600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr15:49312000-49323200	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr15:49313400-49335000	Weak transcription	Pancreas	Pancrea
28	chr15:49313800-49336400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr15:49314200-49329000	Weak transcription	Colon Smooth Muscle	Colon
30	chr15:49314400-49322600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:49315200-49330000	Weak transcription	Pancreatic Islets	Pancreatic Islet
32	chr15:49315800-49328600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr15:49316000-49327600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr15:49316600-49328200	Strong transcription	HSMM	muscle
35	chr15:49317000-49325400	Strong transcription	Liver	Liver
36	chr15:49317200-49329600	Strong transcription	Placenta	Placenta
37	chr15:49317400-49324400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr15:49317600-49322600	Strong transcription	Adipose Nuclei	Adipose
39	chr15:49317600-49327400	Weak transcription	Stomach Mucosa	stomach
40	chr15:49317800-49330200	Strong transcription	Primary B cells from cord blood	blood
41	chr15:49318000-49322600	Strong transcription	Stomach Smooth Muscle	stomach
42	chr15:49318000-49322600	Strong transcription	NHDF-Ad	bronchial
43	chr15:49318000-49323200	Strong transcription	Osteobl	bone
44	chr15:49318000-49329200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr15:49318200-49330000	Strong transcription	Primary T cells from cord blood	blood
46	chr15:49318800-49323000	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr15:49318800-49327200	Weak transcription	Fetal Brain Male	brain
48	chr15:49319200-49324200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr15:49319200-49325000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr15:49319200-49327000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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