Variant report

Variant	rs12902685
Chromosome Location	chr15:92514716-92514717
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	chr15:92495971..92498057-chr15:92512992..92515927,3	MCF-7	breast:
2	chr15:92509773..92512510-chr15:92514174..92516460,3	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10454699	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10852165	0.95[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs10852166	0.86[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs11635055	0.95[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12439826	0.93[ASN][1000 genomes]
rs12441537	1.00[YRI][hapmap]
rs12901238	0.86[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs12903803	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12905744	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12909480	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12910715	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12910862	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs12916491	0.92[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1356417	0.96[ASN][1000 genomes]
rs1400783	0.98[ASN][1000 genomes]
rs1568210	0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs16946157	0.82[ASN][1000 genomes]
rs16946164	0.82[ASN][1000 genomes]
rs16946168	0.95[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs17644254	1.00[YRI][hapmap]
rs2138849	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2176452	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs28470895	0.82[ASN][1000 genomes]
rs35973922	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4312282	1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4932592	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4932593	1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs4984325	1.00[YRI][hapmap]
rs62009549	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7165760	0.95[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs7171131	0.86[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs7171921	0.98[ASN][1000 genomes]
rs7172099	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7172159	0.85[CHB][hapmap]
rs7178673	0.81[ASN][1000 genomes]
rs7178734	0.97[ASN][1000 genomes]
rs7179815	0.95[CHB][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs8025658	1.00[YRI][hapmap]
rs8027160	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs8040046	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs953888	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs976216	0.96[ASN][1000 genomes]
rs9920069	0.95[CHB][hapmap];0.86[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92498200-92555000	Weak transcription	Gastric	stomach
2	chr15:92506000-92517600	Weak transcription	Colonic Mucosa	Colon
3	chr15:92507600-92516400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr15:92508000-92515000	Enhancers	Brain Cingulate Gyrus	brain
5	chr15:92508600-92517600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr15:92508800-92517600	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr15:92509000-92518400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr15:92509600-92515400	Enhancers	Brain Substantia Nigra	brain
9	chr15:92509600-92519200	Enhancers	Brain Hippocampus Middle	brain
10	chr15:92509800-92515200	Enhancers	Brain Anterior Caudate	brain
11	chr15:92512000-92516600	Weak transcription	A549	lung
12	chr15:92512200-92517600	Weak transcription	Pancreas	Pancrea
13	chr15:92512400-92517200	Weak transcription	Spleen	Spleen
14	chr15:92513400-92516600	Weak transcription	Hela-S3	cervix
15	chr15:92513600-92515000	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr15:92513800-92516200	Weak transcription	NHEK	skin
17	chr15:92513800-92516400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:92513800-92516400	Weak transcription	HMEC	breast
19	chr15:92513800-92516600	Weak transcription	Adipose Nuclei	Adipose
20	chr15:92513800-92518400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr15:92513800-92518400	Weak transcription	HSMMtube	muscle
22	chr15:92514000-92516000	Weak transcription	Right Atrium	heart
23	chr15:92514000-92516200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr15:92514000-92516200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr15:92514000-92516600	Weak transcription	Brain Angular Gyrus	brain
26	chr15:92514000-92516800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr15:92514000-92516800	Weak transcription	Esophagus	oesophagus
28	chr15:92514000-92517600	Weak transcription	Fetal Brain Male	brain
29	chr15:92514000-92518600	Weak transcription	Psoas Muscle	Psoas
30	chr15:92514000-92523200	Weak transcription	Aorta	Aorta
31	chr15:92514200-92515800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr15:92514200-92516200	Weak transcription	Right Ventricle	heart
33	chr15:92514200-92516400	Weak transcription	Lung	lung
34	chr15:92514200-92516800	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr15:92514200-92518600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:92514200-92518600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr15:92514400-92515400	Weak transcription	Left Ventricle	heart
38	chr15:92514400-92516200	Weak transcription	Fetal Heart	heart
39	chr15:92514400-92516600	Weak transcription	Ovary	ovary

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