Variant report

Variant	rs16977201
Chromosome Location	chr15:57323191-57323192
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10518898	0.91[YRI][hapmap]
rs11854006	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11858471	1.00[YRI][hapmap]
rs12437635	1.00[CEU][hapmap]
rs12437713	0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12437753	0.81[EUR][1000 genomes]
rs12437777	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12438151	0.88[EUR][1000 genomes]
rs12438244	0.92[EUR][1000 genomes]
rs12438428	1.00[CEU][hapmap]
rs12438464	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12438893	0.88[EUR][1000 genomes]
rs12439010	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12439149	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12439165	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12439266	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12439547	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs12439994	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12440116	0.88[EUR][1000 genomes]
rs12440699	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs12440725	1.00[CEU][hapmap]
rs12440790	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12440891	1.00[CEU][hapmap]
rs12441185	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12441200	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12441263	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12441888	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12441892	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12442042	0.88[EUR][1000 genomes]
rs12442238	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12442326	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12442662	1.00[CEU][hapmap]
rs12442839	0.88[EUR][1000 genomes]
rs12900589	0.95[YRI][hapmap]
rs12900874	1.00[YRI][hapmap]
rs1462157	1.00[CEU][hapmap]
rs16953316	1.00[YRI][hapmap]
rs16953323	0.95[YRI][hapmap]
rs16977155	1.00[YRI][hapmap]
rs16977170	1.00[CEU][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs16977181	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs16977199	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs16977217	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs16977218	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs16977232	0.84[AFR][1000 genomes]
rs16977235	0.95[YRI][hapmap]
rs16977242	0.95[YRI][hapmap]
rs16977245	0.90[YRI][hapmap]
rs16977253	0.95[YRI][hapmap]
rs16977272	0.95[YRI][hapmap]
rs16977276	0.95[YRI][hapmap]
rs16977280	0.95[YRI][hapmap]
rs16977284	0.95[YRI][hapmap]
rs16977297	0.91[YRI][hapmap]
rs16977308	0.89[YRI][hapmap]
rs16977312	0.91[YRI][hapmap]
rs16977315	0.90[YRI][hapmap]
rs17238971	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs17238992	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17239020	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17239047	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17239068	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17239089	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17239187	1.00[CEU][hapmap]
rs17239208	0.92[EUR][1000 genomes]
rs17239215	0.92[EUR][1000 genomes]
rs17415738	0.95[YRI][hapmap];0.81[AFR][1000 genomes]
rs17819646	1.00[CEU][hapmap]
rs17819658	0.88[EUR][1000 genomes]
rs17819664	0.88[EUR][1000 genomes]
rs17819694	0.82[AMR][1000 genomes]
rs17819755	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17819779	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17819809	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17819839	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17819886	0.92[EUR][1000 genomes]
rs17819994	1.00[CEU][hapmap]
rs1816322	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2126398	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs2169466	0.95[YRI][hapmap]
rs2414496	0.88[EUR][1000 genomes]
rs3803455	1.00[YRI][hapmap]
rs41472450	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs4320591	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs4514619	1.00[CEU][hapmap];0.88[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]
rs8031866	1.00[CEU][hapmap];0.92[EUR][1000 genomes]

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:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57307800-57323400	Weak transcription	Pancreas	Pancrea
2	chr15:57308000-57328000	Weak transcription	Gastric	stomach
3	chr15:57308800-57323400	Weak transcription	Small Intestine	intestine
4	chr15:57309200-57323400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:57309400-57334600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr15:57309600-57323200	Weak transcription	Thymus	Thymus
7	chr15:57310800-57323400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr15:57311000-57347000	Weak transcription	Fetal Intestine Large	intestine
9	chr15:57315600-57328200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:57315600-57328600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr15:57316000-57323400	Weak transcription	Primary B cells from cord blood	blood
12	chr15:57316200-57323400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:57316200-57323400	Weak transcription	Fetal Muscle Leg	muscle
14	chr15:57316400-57324000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr15:57316400-57328200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr15:57316400-57345400	Weak transcription	Fetal Intestine Small	intestine
17	chr15:57316600-57327800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr15:57317600-57326200	Weak transcription	Esophagus	oesophagus
19	chr15:57318200-57323200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr15:57318200-57323400	Weak transcription	Left Ventricle	heart
21	chr15:57318400-57323200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr15:57318400-57323200	Weak transcription	Brain Germinal Matrix	brain
23	chr15:57318400-57323400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr15:57318400-57323400	Weak transcription	Stomach Smooth Muscle	stomach
25	chr15:57318600-57323200	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr15:57318600-57323200	Weak transcription	HSMM	muscle
27	chr15:57318600-57323200	Weak transcription	Osteobl	bone
28	chr15:57318600-57323400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:57318600-57323400	Weak transcription	Fetal Stomach	stomach
30	chr15:57318600-57323400	Weak transcription	Ovary	ovary
31	chr15:57318600-57323400	Weak transcription	Right Ventricle	heart
32	chr15:57318600-57323400	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr15:57318600-57323800	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr15:57318600-57331000	Weak transcription	Fetal Kidney	kidney
35	chr15:57318600-57335600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr15:57318800-57323200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr15:57318800-57323200	Weak transcription	Rectal Smooth Muscle	rectum
38	chr15:57318800-57323200	Weak transcription	HSMMtube	muscle
39	chr15:57319600-57323200	Weak transcription	Fetal Lung	lung
40	chr15:57320200-57323400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr15:57320600-57325200	Enhancers	Brain Substantia Nigra	brain
42	chr15:57320800-57323400	Enhancers	Brain Hippocampus Middle	brain
43	chr15:57321400-57324600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
44	chr15:57321600-57323600	Enhancers	Brain Anterior Caudate	brain
45	chr15:57322000-57324400	Enhancers	Fetal Heart	heart
46	chr15:57322200-57323200	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr15:57322400-57323400	Enhancers	Brain Cingulate Gyrus	brain
48	chr15:57322400-57324200	Enhancers	Psoas Muscle	Psoas
49	chr15:57322400-57324400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr15:57322400-57326600	Enhancers	Brain Angular Gyrus	brain

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