Variant report

Variant	rs12916958
Chromosome Location	chr15:57267365-57267366
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57262336..57264742-chr15:57265375..57267744,2	K562	blood:
2	chr15:57254985..57258076-chr15:57265765..57268821,3	K562	blood:
3	chr15:57263359..57266200-chr15:57266241..57268315,2	K562	blood:

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs10518894	0.88[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs10518895	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11071305	0.82[EUR][1000 genomes]
rs11630195	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11631228	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11631541	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11631732	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11632592	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs11852340	0.88[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs11853331	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes]
rs11855648	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs11858471	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12898327	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12898844	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12899187	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12899915	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12900589	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12900874	0.91[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs12900986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12901780	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12903578	0.82[AMR][1000 genomes]
rs12904070	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12904784	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12905900	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12906873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12906936	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12908670	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12909811	0.95[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12910094	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes]
rs12914182	0.83[AMR][1000 genomes]
rs12914410	0.82[AMR][1000 genomes]
rs12914625	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12915473	0.81[AMR][1000 genomes]
rs12916237	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12917247	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13313455	0.85[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs1430823	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1628067	0.92[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17239040	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17819700	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1820995	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2053472	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2111891	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2116065	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2116066	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs213149	0.96[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap]
rs213164	0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2165461	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2169466	0.85[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs2414490	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2414491	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs2414494	0.83[AMR][1000 genomes]
rs2464429	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2464430	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2470079	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2470082	0.80[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2583108	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2585082	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2585087	0.89[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2585088	0.81[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2585102	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2585112	0.89[CHB][hapmap];0.90[JPT][hapmap]
rs2615231	0.85[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs2703576	0.85[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs2703580	0.80[CEU][hapmap];0.83[CHB][hapmap];0.95[JPT][hapmap]
rs2733170	0.80[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2733171	0.88[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2733174	0.89[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2733176	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2733181	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2733188	0.81[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs2733332	0.88[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2920267	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2951899	0.81[CEU][hapmap];0.85[JPT][hapmap]
rs2951901	0.85[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2951903	0.81[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap]
rs2951904	0.80[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap]
rs2962990	0.80[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2962991	0.81[CEU][hapmap];0.89[CHB][hapmap];0.95[JPT][hapmap]
rs2962992	0.90[JPT][hapmap]
rs2962993	0.89[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34262415	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35646942	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3803454	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3803455	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4399497	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4774898	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4774899	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4774902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4774910	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs62022986	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62022988	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62025331	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6493901	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap]
rs715338	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7170133	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7175436	0.84[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap]
rs7496293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8037901	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs967514	0.84[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap]

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:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57256800-57277200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr15:57257200-57274600	Weak transcription	Adipose Nuclei	Adipose
3	chr15:57259400-57268200	Enhancers	HepG2	liver
4	chr15:57260000-57272200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr15:57260000-57272400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr15:57261000-57269400	Weak transcription	Psoas Muscle	Psoas
7	chr15:57261200-57272800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr15:57261200-57279000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:57261400-57272000	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:57261400-57275000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr15:57262000-57269400	Weak transcription	Ovary	ovary
12	chr15:57262000-57269600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:57262200-57270800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr15:57262200-57280000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr15:57263600-57268200	Enhancers	Brain Substantia Nigra	brain
16	chr15:57263800-57267600	Enhancers	A549	lung
17	chr15:57263800-57271000	Weak transcription	Hela-S3	cervix
18	chr15:57263800-57272400	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr15:57263800-57276000	Weak transcription	Lung	lung
20	chr15:57264200-57270600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:57264200-57270800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr15:57264200-57272600	Weak transcription	Thymus	Thymus
23	chr15:57264200-57272800	Weak transcription	Right Atrium	heart
24	chr15:57264200-57272800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr15:57264600-57269400	Weak transcription	Left Ventricle	heart
26	chr15:57264800-57275000	Weak transcription	Duodenum Mucosa	Duodenum
27	chr15:57264800-57275200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr15:57265000-57269600	Weak transcription	Brain Anterior Caudate	brain
29	chr15:57265000-57272800	Weak transcription	Brain Angular Gyrus	brain
30	chr15:57265200-57269600	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr15:57265400-57267400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr15:57265400-57277000	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr15:57265600-57268400	Weak transcription	Fetal Thymus	thymus
34	chr15:57265600-57269600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr15:57265600-57269600	Weak transcription	Fetal Brain Male	brain
36	chr15:57265600-57270800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr15:57265600-57271200	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr15:57265800-57271000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr15:57265800-57271000	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr15:57266200-57269200	Weak transcription	HUES6 Cell Line	embryonic stem cell
41	chr15:57266200-57270800	Weak transcription	NHLF	lung
42	chr15:57266200-57271000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr15:57266200-57271000	Weak transcription	NHDF-Ad	bronchial
44	chr15:57266200-57271600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr15:57266200-57272000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr15:57266200-57272200	Weak transcription	Small Intestine	intestine
47	chr15:57266200-57274200	Weak transcription	Liver	Liver
48	chr15:57266400-57270000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr15:57266400-57270800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr15:57266400-57271000	Weak transcription	K562	blood

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