Variant report

Variant	rs11857706
Chromosome Location	chr15:56939848-56939849
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10152127	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10518870	0.80[CEU][hapmap]
rs11071280	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11071287	0.80[AMR][1000 genomes]
rs11630168	0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11633363	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11635333	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11636994	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11638497	0.81[AMR][1000 genomes]
rs11638580	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11638707	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11852277	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11856558	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11857388	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12148500	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12442189	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12591502	0.91[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12592389	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12595822	0.82[AMR][1000 genomes]
rs12898521	0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];1.00[YRI][hapmap]
rs12898760	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12900244	0.93[CEU][hapmap];0.95[CHB][hapmap];0.96[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs12901887	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs12903283	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12903336	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12903862	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12905514	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12906830	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12908906	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12910442	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12910459	0.82[CEU][hapmap]
rs12911191	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12911381	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12912666	0.88[CEU][hapmap];0.80[CHB][hapmap]
rs12913361	0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs12916079	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1424694	0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs16977020	0.90[CHB][hapmap]
rs17238845	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1979467	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1994081	0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2170459	0.96[CEU][hapmap];0.91[CHB][hapmap];0.96[JPT][hapmap];0.85[YRI][hapmap];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2170463	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2279298	0.92[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.94[YRI][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2279299	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs2414480	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs28480089	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs28620278	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3784554	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3803457	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3816752	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs3929265	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4774244	0.92[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4774884	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4774886	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[YRI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs538382	0.92[CEU][hapmap];0.95[CHB][hapmap];0.96[JPT][hapmap];0.81[YRI][hapmap];0.80[AMR][1000 genomes]
rs553421	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7162317	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs7168178	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs7174432	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7178796	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7182187	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs795032	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8025391	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs8036217	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8041540	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs8043223	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3422474	chr15:56867190-57244330	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv1041239	chr15:56888945-56959028	Weak transcription Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56902800-56945400	Weak transcription	Right Ventricle	heart
2	chr15:56910600-56945400	Weak transcription	HSMMtube	muscle
3	chr15:56912800-56957000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr15:56913400-56955200	Weak transcription	Aorta	Aorta
5	chr15:56916600-56990800	Weak transcription	Pancreas	Pancrea
6	chr15:56916800-56949800	Weak transcription	Fetal Kidney	kidney
7	chr15:56917200-56955200	Weak transcription	Psoas Muscle	Psoas
8	chr15:56917600-56944800	Weak transcription	Fetal Brain Male	brain
9	chr15:56917600-56957000	Weak transcription	Brain Anterior Caudate	brain
10	chr15:56917800-56945400	Weak transcription	GM12878-XiMat	blood
11	chr15:56917800-56955800	Weak transcription	Brain Cingulate Gyrus	brain
12	chr15:56917800-56956800	Weak transcription	Colon Smooth Muscle	Colon
13	chr15:56917800-56959800	Weak transcription	Brain Angular Gyrus	brain
14	chr15:56917800-56990600	Weak transcription	Rectal Smooth Muscle	rectum
15	chr15:56917800-56990600	Weak transcription	NHLF	lung
16	chr15:56918000-56945200	Weak transcription	A549	lung
17	chr15:56918000-56945600	Weak transcription	Stomach Smooth Muscle	stomach
18	chr15:56918400-56945400	Weak transcription	Fetal Intestine Small	intestine
19	chr15:56918400-56957200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr15:56919600-56955200	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr15:56919800-57016600	Weak transcription	Small Intestine	intestine
22	chr15:56920000-56945400	Weak transcription	Fetal Intestine Large	intestine
23	chr15:56920000-56953000	Weak transcription	Fetal Muscle Trunk	muscle
24	chr15:56920400-56945400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr15:56921600-56955200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr15:56921600-56955400	Weak transcription	NH-A	brain
27	chr15:56922000-56954800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr15:56922000-56958000	Weak transcription	Lung	lung
29	chr15:56922200-56945400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr15:56922400-56945400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr15:56922800-56945400	Weak transcription	Primary T helper cells PMA-I stimulated	--
32	chr15:56923000-56940200	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr15:56924000-56945400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr15:56924000-56945400	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr15:56924000-56990600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr15:56924000-56990800	Weak transcription	NHEK	skin
37	chr15:56924200-56944800	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr15:56924200-56945400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr15:56924200-56945400	Weak transcription	Brain Hippocampus Middle	brain
40	chr15:56924200-56945400	Weak transcription	Duodenum Mucosa	Duodenum
41	chr15:56924200-56945400	Weak transcription	Fetal Lung	lung
42	chr15:56924200-56945400	Weak transcription	Left Ventricle	heart
43	chr15:56924200-56949000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:56924200-56955400	Weak transcription	Fetal Brain Female	brain
45	chr15:56924600-56945400	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr15:56924600-56957200	Weak transcription	HUVEC	blood vessel
47	chr15:56925200-56942400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:56928400-56996800	Weak transcription	Gastric	stomach
49	chr15:56928800-56940400	Weak transcription	Dnd41	blood
50	chr15:56930000-56945400	Weak transcription	Fetal Muscle Leg	muscle

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