Variant report

Variant	rs1642925
Chromosome Location	chr15:57249114-57249115
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 101 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:95)

rs_ID	r²[population]
rs1015967	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10438332	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071302	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11071307	0.80[ASN][1000 genomes]
rs1139006	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11630965	0.90[EUR][1000 genomes]
rs11632502	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11632526	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11636655	0.81[ASN][1000 genomes]
rs11856338	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12148850	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12591367	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12595644	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906025	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1346880	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1367491	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1625176	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1628974	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1631079	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642927	0.96[EUR][1000 genomes]
rs1642928	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642929	0.96[EUR][1000 genomes]
rs1642935	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642936	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642937	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642940	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652732	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652737	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1652738	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1652739	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652740	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652741	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657926	0.95[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs169893	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17239222	0.80[EUR][1000 genomes]
rs17819940	0.80[ASN][1000 genomes]
rs1820996	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs190039	0.90[EUR][1000 genomes]
rs1963831	0.85[AMR][1000 genomes]
rs2111890	0.80[ASN][1000 genomes]
rs2111892	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2126402	0.80[EUR][1000 genomes]
rs213148	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs213152	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs213155	0.82[AMR][1000 genomes]
rs213160	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs213163	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs213166	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs213168	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2163370	0.84[AMR][1000 genomes]
rs2169468	0.80[EUR][1000 genomes]
rs2252289	0.81[EUR][1000 genomes]
rs2435905	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2439921	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2439925	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2464427	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2464428	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2470080	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2470081	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2470083	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2470084	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2543675	0.84[EUR][1000 genomes]
rs2566840	0.81[AMR][1000 genomes]
rs2566844	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2566846	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2566856	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2585076	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2585116	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2703588	0.82[EUR][1000 genomes]
rs2733187	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28637136	0.82[ASN][1000 genomes]
rs2915176	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2920266	0.82[AMR][1000 genomes]
rs2920268	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2920270	0.80[EUR][1000 genomes]
rs2920272	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2951896	0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2951897	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2951900	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2951902	0.81[EUR][1000 genomes]
rs2957573	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2957576	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2957578	0.82[EUR][1000 genomes]
rs2962994	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2962995	0.80[EUR][1000 genomes]
rs4774247	0.83[ASN][1000 genomes]
rs55886927	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7168945	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7183392	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72731924	0.81[ASN][1000 genomes]
rs72749478	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72749491	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7359192	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8029445	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9806712	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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	nsv904250	chr15:57225766-57294085	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57212400-57256000	Weak transcription	Pancreas	Pancrea
2	chr15:57213200-57256000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:57222600-57250200	Weak transcription	NH-A	brain
4	chr15:57222800-57255000	Weak transcription	HMEC	breast
5	chr15:57227000-57249800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr15:57227600-57260600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:57228200-57260600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:57229400-57255800	Weak transcription	Fetal Stomach	stomach
9	chr15:57232000-57256000	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr15:57233000-57250200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr15:57236800-57249800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr15:57238400-57256200	Weak transcription	K562	blood
13	chr15:57239600-57250200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:57240200-57249200	Weak transcription	Psoas Muscle	Psoas
15	chr15:57240200-57250200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr15:57240200-57250200	Weak transcription	Left Ventricle	heart
17	chr15:57241000-57255600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr15:57241200-57251600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr15:57241200-57254400	Weak transcription	NHLF	lung
20	chr15:57241600-57249200	Weak transcription	Osteobl	bone
21	chr15:57242200-57249800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr15:57242200-57251400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr15:57242200-57256000	Weak transcription	Ovary	ovary
24	chr15:57242400-57249200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr15:57242400-57250000	Weak transcription	Thymus	Thymus
26	chr15:57242600-57252000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr15:57244000-57255800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr15:57244200-57249200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:57244200-57249200	Weak transcription	Dnd41	blood
30	chr15:57244200-57257800	Weak transcription	Fetal Intestine Small	intestine
31	chr15:57246800-57249200	Weak transcription	Fetal Thymus	thymus
32	chr15:57246800-57256000	Weak transcription	Gastric	stomach
33	chr15:57247000-57249400	ZNF genes & repeats	Fetal Lung	lung
34	chr15:57248200-57249800	Enhancers	HepG2	liver
35	chr15:57248200-57250800	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr15:57248600-57249400	Enhancers	iPS-15b Cell Line	embryonic stem cell
37	chr15:57248600-57251800	Enhancers	iPS-18 Cell Line	embryonic stem cell
38	chr15:57248800-57251800	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr15:57249000-57249400	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
40	chr15:57249000-57252000	Enhancers	HUES48 Cell Line	embryonic stem cell

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