Variant report

Variant	rs12912666
Chromosome Location	chr15:56986245-56986246
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:56985471..56987800-chr15:57023947..57025942,2	K562	blood:

Variant related genes	Relation type
ENSG00000137871	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs1010700	0.82[EUR][1000 genomes]
rs10518870	0.84[CEU][hapmap]
rs11630168	0.92[CEU][hapmap];0.80[CHB][hapmap];0.93[TSI][hapmap]
rs11633363	0.85[EUR][1000 genomes]
rs11635333	0.85[EUR][1000 genomes]
rs11638497	0.88[EUR][1000 genomes]
rs11638580	0.90[EUR][1000 genomes]
rs11638707	0.96[CEU][hapmap];0.80[CHB][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs11856558	0.87[CEU][hapmap]
rs11857706	0.88[CEU][hapmap];0.80[CHB][hapmap]
rs12442018	0.80[EUR][1000 genomes]
rs12442189	0.96[CEU][hapmap];0.93[GIH][hapmap];0.95[TSI][hapmap]
rs12591502	0.95[CEU][hapmap];0.81[EUR][1000 genomes]
rs12592389	0.92[CEU][hapmap];0.85[CHB][hapmap];0.93[TSI][hapmap]
rs12595822	0.89[EUR][1000 genomes]
rs12898521	0.96[CEU][hapmap];0.80[CHB][hapmap];0.87[EUR][1000 genomes]
rs12898760	0.85[EUR][1000 genomes]
rs12900244	0.96[CEU][hapmap];0.88[EUR][1000 genomes]
rs12900441	0.84[EUR][1000 genomes]
rs12903283	0.88[CEU][hapmap];0.80[CHB][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap]
rs12903336	0.88[CEU][hapmap];0.81[CHB][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap]
rs12903862	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap]
rs12905514	0.96[CEU][hapmap];0.80[CHB][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.90[EUR][1000 genomes]
rs12906591	0.84[EUR][1000 genomes]
rs12906830	0.83[EUR][1000 genomes]
rs12910442	0.82[EUR][1000 genomes]
rs12910459	0.85[CEU][hapmap]
rs12911191	0.83[EUR][1000 genomes]
rs12911381	0.96[CEU][hapmap];0.95[TSI][hapmap];0.80[EUR][1000 genomes]
rs12913361	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs12913871	0.84[EUR][1000 genomes]
rs12913960	0.84[EUR][1000 genomes]
rs12916079	0.82[EUR][1000 genomes]
rs1424694	0.96[CEU][hapmap];0.80[CHB][hapmap];0.90[EUR][1000 genomes]
rs1477475	0.82[EUR][1000 genomes]
rs17238845	0.88[CEU][hapmap];0.80[CHB][hapmap];0.93[GIH][hapmap];0.93[TSI][hapmap]
rs1895640	0.82[EUR][1000 genomes]
rs1979467	0.88[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap]
rs1994081	0.92[CEU][hapmap]
rs2128171	0.85[CHB][hapmap]
rs2170459	0.85[CEU][hapmap];0.81[CHB][hapmap]
rs2170463	0.84[CEU][hapmap];0.95[GIH][hapmap];0.95[TSI][hapmap]
rs2279298	1.00[CEU][hapmap];0.81[CHB][hapmap];0.95[GIH][hapmap];0.98[TSI][hapmap];0.85[EUR][1000 genomes]
rs2279299	0.92[CEU][hapmap];0.83[GIH][hapmap];0.91[TSI][hapmap]
rs2414480	0.86[EUR][1000 genomes]
rs28620278	0.96[CEU][hapmap];0.80[CHB][hapmap];1.00[GIH][hapmap];0.98[TSI][hapmap];0.83[EUR][1000 genomes]
rs3784553	0.80[CHB][hapmap]
rs3803457	0.88[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap]
rs3816752	0.85[CEU][hapmap];0.85[TSI][hapmap]
rs3929265	0.83[CEU][hapmap];0.85[CHB][hapmap]
rs4774244	0.96[CEU][hapmap];0.80[CHB][hapmap];1.00[GIH][hapmap];0.98[TSI][hapmap];0.86[EUR][1000 genomes]
rs4774886	0.96[CEU][hapmap];1.00[GIH][hapmap];0.95[TSI][hapmap];0.85[EUR][1000 genomes]
rs521904	0.89[EUR][1000 genomes]
rs538382	0.96[CEU][hapmap];0.85[CHB][hapmap];0.89[EUR][1000 genomes]
rs553421	0.96[CEU][hapmap];0.90[EUR][1000 genomes]
rs559736	0.81[EUR][1000 genomes]
rs62022931	0.81[EUR][1000 genomes]
rs62022934	0.80[EUR][1000 genomes]
rs6493885	0.84[EUR][1000 genomes]
rs7162317	0.96[CEU][hapmap];0.85[CHB][hapmap];0.88[EUR][1000 genomes]
rs7165831	0.81[EUR][1000 genomes]
rs7168178	0.92[CEU][hapmap];0.85[CHB][hapmap];0.93[TSI][hapmap]
rs7171500	0.80[CHB][hapmap]
rs7172110	0.89[CHB][hapmap]
rs795032	0.90[EUR][1000 genomes]
rs8025391	0.92[CEU][hapmap];0.85[CHB][hapmap]
rs8036217	0.85[EUR][1000 genomes]
rs8041540	0.85[EUR][1000 genomes]
rs8043223	0.92[CEU][hapmap];0.80[CHB][hapmap];0.91[TSI][hapmap]

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	esv3388331	chr15:56986210-56986721	Weak transcription Strong transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56916600-56990800	Weak transcription	Pancreas	Pancrea
2	chr15:56917800-56990600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr15:56917800-56990600	Weak transcription	NHLF	lung
4	chr15:56919800-57016600	Weak transcription	Small Intestine	intestine
5	chr15:56924000-56990600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:56924000-56990800	Weak transcription	NHEK	skin
7	chr15:56928400-56996800	Weak transcription	Gastric	stomach
8	chr15:56937400-57000200	Weak transcription	Colonic Mucosa	Colon
9	chr15:56939200-56990800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr15:56945800-56990800	Weak transcription	Fetal Brain Male	brain
11	chr15:56946000-56990800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr15:56946200-56990800	Weak transcription	Right Ventricle	heart
13	chr15:56955800-56990600	Weak transcription	Esophagus	oesophagus
14	chr15:56958000-56990200	Weak transcription	A549	lung
15	chr15:56958200-56990200	Weak transcription	Fetal Muscle Leg	muscle
16	chr15:56958400-56990600	Weak transcription	Lung	lung
17	chr15:56958400-56990800	Weak transcription	Brain Germinal Matrix	brain
18	chr15:56958400-57019200	Weak transcription	Fetal Intestine Small	intestine
19	chr15:56958600-56990600	Weak transcription	Fetal Muscle Trunk	muscle
20	chr15:56959200-56990400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr15:56959200-56990600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr15:56959200-56990600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr15:56959200-56990600	Weak transcription	Stomach Smooth Muscle	stomach
24	chr15:56959200-56992000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:56960800-56992000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr15:56961200-56990600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr15:56961200-56992200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
28	chr15:56965600-56990800	Weak transcription	K562	blood
29	chr15:56967000-56990800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr15:56967600-56990600	Weak transcription	Left Ventricle	heart
31	chr15:56968400-56990600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr15:56968400-56992000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr15:56968400-56992000	Weak transcription	HSMMtube	muscle
34	chr15:56968600-56990000	Weak transcription	NH-A	brain
35	chr15:56968800-56990000	Weak transcription	Primary T cells fromperipheralblood	blood
36	chr15:56968800-56990200	Weak transcription	Osteobl	bone
37	chr15:56969000-56990800	Weak transcription	HMEC	breast
38	chr15:56969400-56990200	Weak transcription	Duodenum Mucosa	Duodenum
39	chr15:56969400-56990400	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr15:56969400-56990800	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr15:56969600-56990200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr15:56969600-56990200	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr15:56969800-56990200	Weak transcription	Primary B cells from cord blood	blood
44	chr15:56969800-56990600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr15:56969800-56990600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr15:56969800-56990600	Weak transcription	Brain Angular Gyrus	brain
47	chr15:56969800-56990800	Weak transcription	HepG2	liver
48	chr15:56970400-56988800	Weak transcription	Liver	Liver
49	chr15:56970400-56990200	Weak transcription	Primary B cells from peripheral blood	blood
50	chr15:56970600-56990600	Weak transcription	Psoas Muscle	Psoas

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