Variant report

Variant	rs1652740
Chromosome Location	chr15:57276780-57276781
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:57275197..57277151-chr15:57278136..57281602,3	K562	blood:
2	chr15:57273239..57275335-chr15:57275612..57277322,2	K562	blood:

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:106)

rs_ID	r²[population]
rs1015967	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10438332	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071302	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11071307	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs1139006	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11630965	0.90[EUR][1000 genomes]
rs11632502	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11632526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11636655	1.00[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs11856338	0.81[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12148850	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12437976	0.82[CEU][hapmap]
rs12591367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12593843	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs12595074	0.85[JPT][hapmap]
rs12595644	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12902058	0.82[CEU][hapmap];0.88[JPT][hapmap]
rs12906025	0.82[CEU][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1346880	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1367491	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1625176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1628974	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1631079	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642925	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642927	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs1642928	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642929	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1642935	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642937	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1642940	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652737	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1652738	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1652739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1652741	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1657926	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs169893	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17239222	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[EUR][1000 genomes]
rs17819940	1.00[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs1820996	0.95[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1870870	0.95[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs190039	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs1963831	0.84[CEU][hapmap];0.86[JPT][hapmap]
rs2111890	0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs2111892	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2126402	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[EUR][1000 genomes]
rs213148	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs213152	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs213155	0.81[JPT][hapmap];0.82[AMR][1000 genomes]
rs213160	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs213163	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs213166	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs213168	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2169468	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[EUR][1000 genomes]
rs2252289	0.95[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2435905	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2439921	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2439925	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2464427	0.95[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2464428	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2470080	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2470081	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2470083	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2470084	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2543675	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs2566840	0.82[CEU][hapmap];0.81[CHB][hapmap];0.87[JPT][hapmap];0.84[AMR][1000 genomes]
rs2566844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2566846	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2566856	0.95[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2585076	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2585116	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2703588	0.95[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes]
rs2733187	0.95[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28637136	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2915176	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2920266	0.82[AMR][1000 genomes]
rs2920268	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2920270	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2920272	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[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];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2951900	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2951902	0.95[CEU][hapmap];0.91[CHB][hapmap];0.93[JPT][hapmap];0.84[EUR][1000 genomes]
rs2957573	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2957576	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2957578	0.95[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2957592	1.00[CEU][hapmap];0.91[CHB][hapmap];0.83[EUR][1000 genomes]
rs2962988	0.86[JPT][hapmap]
rs2962994	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2962995	1.00[CEU][hapmap];0.90[CHB][hapmap];0.84[EUR][1000 genomes]
rs3794617	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs4774246	0.82[CEU][hapmap];0.86[JPT][hapmap]
rs4774247	0.83[ASN][1000 genomes]
rs55886927	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7162730	0.80[AMR][1000 genomes]
rs7168945	0.82[CEU][hapmap];0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7183392	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72731924	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72749478	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72749491	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs734033	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs7359192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8029445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8042190	1.00[CEU][hapmap]
rs9806712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[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:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57256800-57277200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr15:57261200-57279000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr15:57262200-57280000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr15:57265400-57277000	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr15:57269800-57304800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:57270000-57276800	Weak transcription	HSMMtube	muscle
7	chr15:57270000-57280200	Weak transcription	Fetal Brain Male	brain
8	chr15:57272000-57276800	Weak transcription	Hela-S3	cervix
9	chr15:57272200-57280600	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr15:57272200-57282400	Enhancers	Primary T cells from cord blood	blood
11	chr15:57272600-57276800	Weak transcription	HMEC	breast
12	chr15:57272600-57278000	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr15:57272800-57276800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr15:57272800-57276800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr15:57273000-57279400	Weak transcription	Pancreas	Pancrea
16	chr15:57273000-57280800	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr15:57273000-57281400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:57273000-57281600	Weak transcription	Ovary	ovary
19	chr15:57273000-57283200	Weak transcription	Spleen	Spleen
20	chr15:57273000-57285800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr15:57273000-57307200	Weak transcription	Fetal Intestine Small	intestine
22	chr15:57273600-57276800	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr15:57273600-57278800	Enhancers	HUVEC	blood vessel
24	chr15:57273600-57279400	Weak transcription	Small Intestine	intestine
25	chr15:57273600-57281600	Weak transcription	K562	blood
26	chr15:57274000-57276800	Enhancers	NHDF-Ad	bronchial
27	chr15:57274000-57287600	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr15:57274200-57280400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr15:57274200-57289200	Weak transcription	Fetal Muscle Leg	muscle
30	chr15:57274200-57295600	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr15:57274600-57278600	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr15:57274800-57277800	Enhancers	Brain Hippocampus Middle	brain
33	chr15:57275000-57277000	Enhancers	Thymus	Thymus
34	chr15:57275000-57279000	Enhancers	Monocytes-CD14+_RO01746	blood
35	chr15:57275200-57276800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr15:57275200-57278400	Enhancers	Primary monocytes fromperipheralblood	blood
37	chr15:57275400-57276800	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr15:57275400-57276800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr15:57275400-57276800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr15:57275400-57277000	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr15:57275400-57277000	Weak transcription	A549	lung
42	chr15:57275400-57280400	Weak transcription	Rectal Smooth Muscle	rectum
43	chr15:57275400-57306200	Weak transcription	Duodenum Mucosa	Duodenum
44	chr15:57275600-57276800	Weak transcription	Primary neutrophils fromperipheralblood	blood
45	chr15:57275600-57276800	Weak transcription	Adipose Nuclei	Adipose
46	chr15:57275600-57276800	Weak transcription	Brain Angular Gyrus	brain
47	chr15:57275600-57276800	Weak transcription	Brain Anterior Caudate	brain
48	chr15:57275600-57277000	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr15:57275600-57277600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr15:57275600-57278200	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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