Variant report

Variant	rs3105867
Chromosome Location	chr15:49498465-49498466
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	chr15:49498210..49500697-chr15:49501060..49503972,2	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11070686	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11636671	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11636795	0.91[CEU][hapmap]
rs11852524	0.91[CEU][hapmap]
rs12440534	1.00[CEU][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1904317	1.00[CEU][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2243899	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2246995	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2413936	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2413939	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2413942	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2580924	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2940747	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3098614	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3105865	1.00[CEU][hapmap];0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4775803	1.00[CEU][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs485182	1.00[CEU][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs520949	0.95[CEU][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs532209	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs568994	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs586758	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs641077	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6493364	1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8032650	1.00[CEU][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8041781	1.00[CEU][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8041823	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9920772	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039220	chr15:49492509-49644261	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3105867	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49463200-49508200	Weak transcription	Ovary	ovary
2	chr15:49463600-49517600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:49463600-49527800	Weak transcription	HSMM	muscle
4	chr15:49463600-49540200	Weak transcription	Colonic Mucosa	Colon
5	chr15:49464400-49500000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:49465400-49508200	Weak transcription	Hela-S3	cervix
7	chr15:49480000-49510600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:49480200-49500200	Weak transcription	Spleen	Spleen
9	chr15:49480200-49502000	Weak transcription	Aorta	Aorta
10	chr15:49480200-49503800	Weak transcription	Esophagus	oesophagus
11	chr15:49480600-49503800	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr15:49481600-49498600	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr15:49484200-49519400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr15:49487000-49510600	Weak transcription	Thymus	Thymus
15	chr15:49487200-49531200	Weak transcription	HMEC	breast
16	chr15:49489200-49508000	Weak transcription	Gastric	stomach
17	chr15:49489400-49508200	Weak transcription	Pancreas	Pancrea
18	chr15:49489800-49499000	Weak transcription	Dnd41	blood
19	chr15:49490000-49499400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr15:49490800-49508400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr15:49491400-49510600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr15:49492000-49517600	Weak transcription	NHLF	lung
23	chr15:49492000-49520000	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr15:49492000-49527800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr15:49492000-49530200	Weak transcription	Stomach Smooth Muscle	stomach
26	chr15:49492000-49539400	Weak transcription	Small Intestine	intestine
27	chr15:49492200-49499600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr15:49492200-49499600	Weak transcription	Fetal Lung	lung
29	chr15:49492200-49512800	Weak transcription	NHDF-Ad	bronchial
30	chr15:49492600-49503800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr15:49492800-49514600	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr15:49493000-49503800	Weak transcription	Brain Hippocampus Middle	brain
33	chr15:49493000-49520000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr15:49494000-49518600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr15:49494400-49506000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr15:49494800-49499000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr15:49494800-49501200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr15:49495000-49499800	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr15:49495000-49500600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr15:49495000-49503000	Weak transcription	Fetal Thymus	thymus
41	chr15:49495000-49509400	Weak transcription	K562	blood
42	chr15:49495000-49510600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr15:49495000-49515600	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr15:49495000-49515800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr15:49495000-49518000	Weak transcription	Placenta	Placenta
46	chr15:49495200-49499400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr15:49495200-49520200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr15:49495400-49510400	Weak transcription	Osteobl	bone
49	chr15:49495600-49498600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr15:49496000-49499000	Weak transcription	Monocytes-CD14+_RO01746	blood

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