Variant report

Variant	rs62002534
Chromosome Location	chr15:40203786-40203787
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40198142..40201041-chr15:40203381..40204995,2	MCF-7	breast:
2	chr1:210545822..210547422-chr15:40202816..40204989,2	MCF-7	breast:
3	chr15:40190408..40192774-chr15:40202845..40204852,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12373003	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs172105	0.82[EUR][1000 genomes]
rs28376567	0.84[ASN][1000 genomes]
rs28495043	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28573294	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs41487846	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs41497851	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4923844	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4924399	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55859027	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62002527	0.95[ASN][1000 genomes]
rs62002531	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62002533	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv832979	chr15:40041928-40218407	Genic enhancers Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv832983	chr15:40098766-40248839	Genic enhancers Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40194600-40211000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr15:40197200-40210200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr15:40197400-40209200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:40199800-40211800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:40200600-40207400	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr15:40200600-40210400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr15:40201200-40204200	Enhancers	H1 Cell Line	embryonic stem cell
8	chr15:40201200-40209800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr15:40201400-40204800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr15:40201400-40211600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:40201600-40203800	Weak transcription	NHDF-Ad	bronchial
12	chr15:40201600-40209800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:40201600-40210200	Weak transcription	HMEC	breast
14	chr15:40201600-40210200	Weak transcription	HUVEC	blood vessel
15	chr15:40201600-40210400	Weak transcription	Aorta	Aorta
16	chr15:40201800-40204000	Strong transcription	HSMM	muscle
17	chr15:40201800-40210200	Weak transcription	HSMMtube	muscle
18	chr15:40201800-40210400	Weak transcription	NHEK	skin
19	chr15:40202000-40209000	Weak transcription	NHLF	lung
20	chr15:40202400-40205000	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr15:40202400-40207200	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr15:40202600-40204600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:40202600-40207800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr15:40202600-40210400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:40202800-40207200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr15:40202800-40210200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr15:40203000-40205000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr15:40203000-40207400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr15:40203000-40210400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:40203200-40204200	Enhancers	iPS-15b Cell Line	embryonic stem cell
31	chr15:40203600-40204000	Enhancers	H9 Cell Line	embryonic stem cell
32	chr15:40203600-40204000	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
33	chr15:40203600-40204000	Genic enhancers	NH-A	brain
34	chr15:40203600-40204000	Enhancers	Osteobl	bone
35	chr15:40203600-40204800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr15:40203600-40206000	Genic enhancers	HUES48 Cell Line	embryonic stem cell

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