Variant report

Variant	rs16977199
Chromosome Location	chr15:57315280-57315281
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57179828..57184056-chr15:57314164..57317264,3	K562	blood:
2	chr15:57315197..57318733-chr15:57320688..57324516,3	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10518898	0.91[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11858471	1.00[YRI][hapmap]
rs12437713	0.95[YRI][hapmap];0.92[AFR][1000 genomes]
rs12900589	0.95[YRI][hapmap]
rs12900874	1.00[YRI][hapmap]
rs16953316	1.00[YRI][hapmap]
rs16953323	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977155	1.00[YRI][hapmap];0.80[AMR][1000 genomes]
rs16977170	0.85[AFR][1000 genomes]
rs16977181	1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977201	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs16977217	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16977218	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977232	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977235	0.95[YRI][hapmap];0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977242	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977244	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977245	0.90[YRI][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977253	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977272	0.95[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977276	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977280	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977284	0.95[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977297	0.91[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977308	0.89[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977312	0.91[YRI][hapmap];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16977315	0.90[YRI][hapmap]
rs17415738	0.95[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2169466	0.95[YRI][hapmap]
rs2593220	1.00[EUR][1000 genomes]
rs2615251	1.00[EUR][1000 genomes]
rs2733343	1.00[EUR][1000 genomes]
rs2733345	1.00[EUR][1000 genomes]
rs28576265	1.00[EUR][1000 genomes]
rs34560099	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3803455	1.00[YRI][hapmap]
rs41472450	1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4774898	1.00[YRI][hapmap]
rs4774902	0.95[YRI][hapmap]
rs715338	1.00[YRI][hapmap]
rs7183392	0.95[YRI][hapmap]
rs7496293	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv542393	chr15:57115116-57341363	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv1052052	chr15:57232111-57344561	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv542394	chr15:57232111-57344561	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	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

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57289600-57315600	Weak transcription	Fetal Muscle Leg	muscle
2	chr15:57289800-57315600	Weak transcription	Primary B cells from cord blood	blood
3	chr15:57297200-57316800	Weak transcription	Fetal Stomach	stomach
4	chr15:57299200-57316000	Weak transcription	Right Ventricle	heart
5	chr15:57299200-57317200	Weak transcription	Esophagus	oesophagus
6	chr15:57303600-57317600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr15:57307800-57323400	Weak transcription	Pancreas	Pancrea
8	chr15:57308000-57317400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr15:57308000-57328000	Weak transcription	Gastric	stomach
10	chr15:57308800-57323400	Weak transcription	Small Intestine	intestine
11	chr15:57309200-57323400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr15:57309400-57323000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr15:57309400-57334600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr15:57309600-57316000	Weak transcription	Fetal Intestine Small	intestine
15	chr15:57309600-57317200	Weak transcription	Psoas Muscle	Psoas
16	chr15:57309600-57323200	Weak transcription	Thymus	Thymus
17	chr15:57310000-57317000	Weak transcription	Fetal Lung	lung
18	chr15:57310800-57323400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:57311000-57316400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr15:57311000-57317200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:57311000-57317200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:57311000-57317400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr15:57311000-57317400	Weak transcription	Left Ventricle	heart
24	chr15:57311000-57347000	Weak transcription	Fetal Intestine Large	intestine
25	chr15:57311800-57316800	Weak transcription	Brain Cingulate Gyrus	brain
26	chr15:57312000-57316000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr15:57312000-57317600	Weak transcription	NHEK	skin
28	chr15:57312000-57318600	Weak transcription	Aorta	Aorta
29	chr15:57312200-57317200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr15:57312200-57317400	Weak transcription	Brain Anterior Caudate	brain
31	chr15:57312400-57317200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr15:57312400-57317200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr15:57312400-57317400	Weak transcription	Ovary	ovary
34	chr15:57312400-57317600	Weak transcription	A549	lung
35	chr15:57312400-57317600	Weak transcription	HSMM	muscle
36	chr15:57312400-57323000	Weak transcription	K562	blood
37	chr15:57312600-57316600	Weak transcription	Hela-S3	cervix
38	chr15:57312600-57317200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr15:57312600-57317200	Weak transcription	HMEC	breast
40	chr15:57312600-57317400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr15:57312600-57317600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:57312600-57317600	Weak transcription	NH-A	brain
43	chr15:57312600-57317800	Weak transcription	Colon Smooth Muscle	Colon
44	chr15:57312800-57316000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
45	chr15:57312800-57317400	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr15:57312800-57317600	Weak transcription	Brain Substantia Nigra	brain
47	chr15:57312800-57317600	Weak transcription	Osteobl	bone
48	chr15:57313800-57316000	Weak transcription	Fetal Thymus	thymus
49	chr15:57313800-57316800	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr15:57313800-57317600	Weak transcription	NHDF-Ad	bronchial

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