Variant report

Variant	rs7402987
Chromosome Location	chr15:52388222-52388223
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52309194..52314432-chr15:52385325..52393461,10	MCF-7	breast:
2	chr15:52385731..52388322-chr15:52391743..52394058,2	MCF-7	breast:
3	chr15:52262398..52265193-chr15:52386264..52389426,3	MCF-7	breast:
4	chr15:52388135..52390483-chr15:52464352..52466647,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166477	Chromatin interaction
ENSG00000259438	Chromatin interaction
ENSG00000069956	Chromatin interaction
ENSG00000259712	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11636443	0.81[CEU][hapmap]
rs11857876	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28534987	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28715677	0.85[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4776001	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4776002	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6493534	0.84[CEU][hapmap];0.90[JPT][hapmap]
rs8034888	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[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	nsv530681	chr15:52297253-52390470	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv471244	chr15:52305463-52511465	Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv984198	chr15:52319726-52481137	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	esv7122	chr15:52388137-52389797	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52385000-52388400	Enhancers	HMEC	breast
2	chr15:52385800-52395400	Weak transcription	Fetal Kidney	kidney
3	chr15:52386000-52388400	Enhancers	Adipose Nuclei	Adipose
4	chr15:52386200-52399000	Weak transcription	Rectal Smooth Muscle	rectum
5	chr15:52386400-52391000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:52386600-52388400	Enhancers	GM12878-XiMat	blood
7	chr15:52386600-52389400	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr15:52386600-52389400	Weak transcription	Primary hematopoietic stem cells	blood
9	chr15:52386600-52390800	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr15:52386600-52393000	Weak transcription	Right Atrium	heart
11	chr15:52386800-52388600	Enhancers	Osteobl	bone
12	chr15:52386800-52390600	Weak transcription	Liver	Liver
13	chr15:52386800-52392600	Weak transcription	Placenta	Placenta
14	chr15:52387200-52390400	Weak transcription	HepG2	liver
15	chr15:52387400-52389400	Weak transcription	Fetal Intestine Small	intestine
16	chr15:52387600-52388400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr15:52387600-52388600	Enhancers	NHDF-Ad	bronchial
18	chr15:52387600-52389000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr15:52387600-52389400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr15:52387600-52389400	Weak transcription	Colonic Mucosa	Colon
21	chr15:52387600-52389400	Weak transcription	Fetal Intestine Large	intestine
22	chr15:52387600-52389400	Weak transcription	Fetal Muscle Leg	muscle
23	chr15:52387600-52389400	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr15:52387600-52389800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr15:52387600-52392200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr15:52387600-52392600	Weak transcription	NH-A	brain
27	chr15:52387600-52395200	Weak transcription	Colon Smooth Muscle	Colon
28	chr15:52387600-52395400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr15:52387600-52395400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr15:52387600-52396600	Weak transcription	Spleen	Spleen
31	chr15:52387600-52396800	Weak transcription	Esophagus	oesophagus
32	chr15:52387800-52388600	Enhancers	NHEK	skin
33	chr15:52387800-52388800	Enhancers	Muscle Satellite Cultured Cells	--
34	chr15:52387800-52388800	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr15:52387800-52389400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr15:52387800-52389400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:52387800-52391800	Enhancers	Hela-S3	cervix
38	chr15:52387800-52392400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:52387800-52392400	Weak transcription	NHLF	lung
40	chr15:52387800-52392600	Weak transcription	Ovary	ovary
41	chr15:52387800-52393000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:52387800-52393000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr15:52387800-52393000	Weak transcription	Small Intestine	intestine
44	chr15:52387800-52393000	Weak transcription	HSMMtube	muscle
45	chr15:52388000-52389400	Weak transcription	HSMM	muscle
46	chr15:52388000-52389400	Weak transcription	HUVEC	blood vessel
47	chr15:52388000-52393200	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr15:52388200-52388400	Enhancers	A549	lung
49	chr15:52388200-52388600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr15:52388200-52389600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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