Variant report

Variant	rs9806208
Chromosome Location	chr15:49632443-49632444
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10467993	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10851475	0.92[ASN][1000 genomes]
rs11070687	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11630937	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11632386	0.80[EUR][1000 genomes]
rs11633810	0.80[AMR][1000 genomes]
rs11852825	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11854667	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12437486	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12438777	0.83[AMR][1000 genomes]
rs12899761	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12902497	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12903238	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12903904	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12904171	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12909779	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12916840	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1594188	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16962111	0.83[AMR][1000 genomes]
rs1816293	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1864299	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1904313	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1904314	0.85[ASN][1000 genomes]
rs1981995	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2043036	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2099141	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2163095	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2163096	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2247517	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2263559	0.82[AMR][1000 genomes]
rs2264508	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2289390	0.80[AMR][1000 genomes]
rs2413941	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2439133	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2457229	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28374976	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28653543	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28687437	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2899431	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2940746	0.82[AMR][1000 genomes]
rs3098613	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3098619	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3098621	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3105858	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3105864	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3105866	0.83[AMR][1000 genomes]
rs3907313	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4393519	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4421927	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4508377	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4774537	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4775810	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs481466	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs489813	0.83[AMR][1000 genomes]
rs507054	0.80[AMR][1000 genomes]
rs520495	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs604765	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs609434	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs612803	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs619045	0.83[AMR][1000 genomes]
rs62009779	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs626295	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs633333	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6493356	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6493357	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6493359	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6493362	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs66499252	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs672777	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs694882	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7162360	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7166847	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7168201	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7169443	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7173761	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7179127	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7179237	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs735495	0.83[ASN][1000 genomes]
rs8024102	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8025237	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8031480	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8034112	0.94[AFR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8034956	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8035266	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8039512	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs8039920	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8040134	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8041461	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8182081	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs919447	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9806776	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs981612	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
2	nsv1039368	chr15:49566094-49764066	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833002	chr15:49621400-49781799	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9806208	COPS2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49599200-49636800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:49612200-49639000	Weak transcription	NHEK	skin
3	chr15:49612600-49639400	Weak transcription	Right Ventricle	heart
4	chr15:49612800-49638000	Weak transcription	Brain Angular Gyrus	brain
5	chr15:49613000-49633200	Weak transcription	Gastric	stomach
6	chr15:49613200-49633200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
7	chr15:49613600-49633800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr15:49613600-49637200	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr15:49613600-49643000	Weak transcription	Pancreas	Pancrea
10	chr15:49613800-49632600	Weak transcription	Fetal Thymus	thymus
11	chr15:49613800-49639800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr15:49614200-49637200	Weak transcription	Primary B cells from peripheral blood	blood
13	chr15:49614200-49640200	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:49614200-49640200	Weak transcription	Small Intestine	intestine
15	chr15:49614400-49633400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:49614400-49634000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr15:49614800-49639000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr15:49615800-49633600	Weak transcription	Placenta	Placenta
19	chr15:49615800-49636600	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:49616000-49641400	Weak transcription	Fetal Lung	lung
21	chr15:49617800-49633000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr15:49622600-49642600	Weak transcription	HSMM	muscle
23	chr15:49623000-49633800	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr15:49623000-49640200	Weak transcription	Primary T cells from cord blood	blood
25	chr15:49623200-49646000	Weak transcription	Left Ventricle	heart
26	chr15:49623400-49632600	Weak transcription	Dnd41	blood
27	chr15:49623400-49635800	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr15:49623400-49636800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr15:49623400-49638200	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr15:49623400-49638400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr15:49623400-49639600	Weak transcription	Primary T cells fromperipheralblood	blood
32	chr15:49623400-49639800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr15:49623400-49640000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr15:49623400-49647600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr15:49623800-49640200	Weak transcription	Liver	Liver
36	chr15:49628400-49633800	Weak transcription	Spleen	Spleen
37	chr15:49628600-49640800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:49629400-49639000	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr15:49631000-49636200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr15:49631400-49632600	ZNF genes & repeats	Fetal Stomach	stomach
41	chr15:49631600-49632600	Enhancers	ES-I3 Cell Line	embryonic stem cell
42	chr15:49631600-49632600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr15:49631600-49632600	ZNF genes & repeats	Fetal Intestine Small	intestine
44	chr15:49631800-49632600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr15:49631800-49635600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
46	chr15:49632000-49632600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
47	chr15:49632000-49633200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr15:49632000-49638200	Weak transcription	Aorta	Aorta
49	chr15:49632000-49640200	Weak transcription	Ovary	ovary
50	chr15:49632200-49632600	ZNF genes & repeats	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links