Variant report

Variant	rs10518898
Chromosome Location	chr15:57490605-57490606
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57489288..57492189-chr15:57492368..57494008,2	MCF-7	breast:
2	chr15:57489296..57493196-chr15:57493593..57496438,4	K562	blood:
3	chr15:57484373..57486425-chr15:57489732..57491739,3	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1045665	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10518904	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12437713	0.95[YRI][hapmap]
rs12900589	0.95[YRI][hapmap]
rs12900874	0.90[YRI][hapmap]
rs16953323	0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977181	0.90[YRI][hapmap]
rs16977199	0.91[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977201	0.91[YRI][hapmap]
rs16977217	0.91[YRI][hapmap];0.80[AMR][1000 genomes]
rs16977218	0.91[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977232	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977235	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977242	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977244	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977245	0.90[YRI][hapmap];1.00[EUR][1000 genomes]
rs16977253	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977272	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977276	0.95[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977280	0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977284	0.95[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977297	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977308	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977312	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977315	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977329	1.00[EUR][1000 genomes]
rs16977330	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977333	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977341	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977352	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977353	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977354	0.91[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977372	0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17415738	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1867639	1.00[EUR][1000 genomes]
rs2169466	0.95[YRI][hapmap]
rs2593220	1.00[EUR][1000 genomes]
rs2615251	1.00[EUR][1000 genomes]
rs2733316	1.00[EUR][1000 genomes]
rs2733317	1.00[EUR][1000 genomes]
rs2733343	1.00[EUR][1000 genomes]
rs2733345	1.00[EUR][1000 genomes]
rs28454221	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34560099	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7183392	0.86[YRI][hapmap]
rs7496293	0.91[YRI][hapmap]
rs935327	1.00[EUR][1000 genomes]
rs935329	1.00[EUR][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	nsv1042486	chr15:57094598-57505992	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv904251	chr15:57241970-57575916	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57439400-57491600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr15:57444400-57507400	Weak transcription	K562	blood
3	chr15:57450800-57491000	Weak transcription	Left Ventricle	heart
4	chr15:57451000-57490800	Weak transcription	NHEK	skin
5	chr15:57451600-57491200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr15:57453800-57524600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:57457200-57499400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr15:57458200-57505200	Strong transcription	Fetal Thymus	thymus
9	chr15:57459200-57492600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr15:57473600-57491200	Weak transcription	Gastric	stomach
11	chr15:57475800-57491000	Weak transcription	Colon Smooth Muscle	Colon
12	chr15:57476200-57491200	Weak transcription	Stomach Smooth Muscle	stomach
13	chr15:57477000-57492800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr15:57477200-57491000	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr15:57478200-57493200	Weak transcription	HepG2	liver
16	chr15:57478600-57494000	Weak transcription	Pancreas	Pancrea
17	chr15:57478800-57490800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:57478800-57526200	Weak transcription	Hela-S3	cervix
19	chr15:57479400-57490800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:57479400-57491000	Weak transcription	HSMM	muscle
21	chr15:57479400-57524800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr15:57481800-57524600	Weak transcription	Right Ventricle	heart
23	chr15:57482400-57491200	Weak transcription	Fetal Brain Male	brain
24	chr15:57483000-57493800	Weak transcription	Colonic Mucosa	Colon
25	chr15:57484600-57493200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr15:57484800-57496200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr15:57484800-57502000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr15:57485000-57490800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:57485000-57490800	Weak transcription	Fetal Stomach	stomach
30	chr15:57485000-57491000	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr15:57485000-57491200	Weak transcription	Esophagus	oesophagus
32	chr15:57485000-57501000	Weak transcription	Spleen	Spleen
33	chr15:57485000-57501800	Weak transcription	Lung	lung
34	chr15:57485000-57506200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr15:57485600-57505000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr15:57485800-57491200	Weak transcription	NHLF	lung
37	chr15:57485800-57493600	Weak transcription	A549	lung
38	chr15:57486600-57491200	Weak transcription	Muscle Satellite Cultured Cells	--
39	chr15:57486600-57493400	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr15:57486600-57496000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr15:57486800-57490800	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr15:57486800-57493000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr15:57486800-57505800	Weak transcription	NHDF-Ad	bronchial
44	chr15:57487000-57491400	Weak transcription	Primary B cells from peripheral blood	blood
45	chr15:57487000-57496600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr15:57487000-57524400	Weak transcription	Placenta	Placenta
47	chr15:57487200-57491200	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr15:57487200-57503000	Weak transcription	Liver	Liver
49	chr15:57487200-57511200	Weak transcription	Fetal Muscle Trunk	muscle
50	chr15:57487400-57490800	Weak transcription	Duodenum Mucosa	Duodenum

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