Variant report

Variant	rs8032650
Chromosome Location	chr15:49563552-49563553
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49562115..49563825-chr15:49566654..49568505,2	K562	blood:
2	chr15:49558189..49560695-chr15:49563264..49565928,2	K562	blood:
3	chr15:49562095..49563801-chr15:49574266..49577250,2	K562	blood:
4	chr15:49558189..49560695-chr15:49563264..49567318,4	K562	blood:

Variant related genes	Relation type
ENSG00000156958	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10519230	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs10851475	0.81[GIH][hapmap]
rs11070686	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11070693	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap]
rs11631040	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap]
rs11636671	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11636795	0.91[CEU][hapmap];0.95[CHB][hapmap]
rs11852524	0.91[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap]
rs11858114	0.92[GIH][hapmap]
rs12101599	0.86[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap]
rs12440534	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12898709	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12900001	1.00[CHB][hapmap];0.93[CHD][hapmap]
rs12913745	0.81[CEU][hapmap];0.82[CHB][hapmap]
rs12917024	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs16962243	0.83[JPT][hapmap]
rs16962490	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap]
rs1904317	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2086256	0.95[GIH][hapmap]
rs2127242	0.95[GIH][hapmap]
rs2219812	0.95[GIH][hapmap]
rs2243899	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2246995	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2413936	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2413939	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2413942	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2580924	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2940747	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3098614	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3098620	0.92[GIH][hapmap]
rs3105865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3105867	1.00[CEU][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4775803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs485182	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs520949	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs532209	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs568994	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs586758	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];0.97[TSI][hapmap];0.83[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs641077	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.81[MKK][hapmap];0.97[TSI][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6493363	0.95[GIH][hapmap]
rs6493364	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6493369	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap]
rs8041781	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8041823	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9920772	0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][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
rs8032650	GALK2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49520400-49595600	Weak transcription	Right Ventricle	heart
2	chr15:49528000-49576000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr15:49533800-49576200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr15:49535600-49564600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr15:49535600-49574200	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr15:49535600-49574200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr15:49535800-49566800	Weak transcription	Left Ventricle	heart
8	chr15:49535800-49575800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:49537600-49566000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr15:49540000-49566200	Weak transcription	K562	blood
11	chr15:49540000-49577600	Weak transcription	Small Intestine	intestine
12	chr15:49541600-49575000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr15:49541600-49595800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:49543800-49564600	Weak transcription	Duodenum Mucosa	Duodenum
15	chr15:49543800-49574200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr15:49548800-49575800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr15:49549400-49575200	Weak transcription	Hela-S3	cervix
18	chr15:49551000-49574200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr15:49551000-49575400	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr15:49554800-49575400	Weak transcription	Fetal Lung	lung
21	chr15:49557200-49611800	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr15:49557800-49569600	Weak transcription	Fetal Intestine Small	intestine
23	chr15:49557800-49575800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr15:49557800-49575800	Weak transcription	Fetal Stomach	stomach
25	chr15:49557800-49607600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr15:49558000-49575800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr15:49558000-49624400	Weak transcription	Esophagus	oesophagus
28	chr15:49558200-49564200	Weak transcription	Liver	Liver
29	chr15:49558200-49611800	Weak transcription	Colonic Mucosa	Colon
30	chr15:49558400-49575800	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr15:49558600-49568400	Weak transcription	Psoas Muscle	Psoas
32	chr15:49558600-49569000	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr15:49558600-49574000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr15:49558600-49575400	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr15:49558800-49574000	Weak transcription	Primary hematopoietic stem cells	blood
36	chr15:49558800-49575200	Weak transcription	Fetal Intestine Large	intestine
37	chr15:49559000-49574600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr15:49559200-49581400	Weak transcription	Spleen	Spleen
39	chr15:49559600-49573800	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr15:49559800-49566200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr15:49559800-49574200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr15:49559800-49575200	Weak transcription	Primary B cells from cord blood	blood
43	chr15:49560000-49574000	Weak transcription	Primary B cells from peripheral blood	blood
44	chr15:49560400-49568600	Weak transcription	Brain Inferior Temporal Lobe	brain
45	chr15:49560800-49566400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr15:49561000-49600800	Weak transcription	Pancreas	Pancrea
47	chr15:49561200-49564000	Weak transcription	Right Atrium	heart
48	chr15:49561200-49564200	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr15:49561200-49575200	Weak transcription	Thymus	Thymus
50	chr15:49561400-49566200	Weak transcription	Pancreatic Islets	Pancreatic Islet

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links