Variant report

Variant	rs28694140
Chromosome Location	chr15:50347130-50347131
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:50346066..50347875-chr15:50350812..50353705,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10162988	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28378462	1.00[AMR][1000 genomes]
rs28430678	1.00[AMR][1000 genomes]
rs28435529	1.00[AMR][1000 genomes]
rs28452447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28488704	1.00[AMR][1000 genomes]
rs28503500	1.00[AMR][1000 genomes]
rs28547013	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28624511	1.00[AMR][1000 genomes]
rs28649721	1.00[AMR][1000 genomes]
rs28665904	1.00[AMR][1000 genomes]
rs28694493	1.00[AMR][1000 genomes]
rs28695746	1.00[AMR][1000 genomes]
rs28720873	1.00[AMR][1000 genomes]
rs28889088	1.00[AMR][1000 genomes]
rs56654392	1.00[AMR][1000 genomes]
rs57191911	1.00[AMR][1000 genomes]
rs57210505	1.00[AMR][1000 genomes]
rs59021616	1.00[AMR][1000 genomes]
rs60436593	1.00[AMR][1000 genomes]
rs60959211	1.00[AMR][1000 genomes]
rs61626064	1.00[AMR][1000 genomes]
rs7163385	1.00[AMR][1000 genomes]
rs73400825	1.00[AMR][1000 genomes]
rs73400834	1.00[AMR][1000 genomes]
rs73400842	1.00[AMR][1000 genomes]
rs73400860	1.00[AMR][1000 genomes]
rs73400867	1.00[AMR][1000 genomes]
rs73400871	1.00[AMR][1000 genomes]
rs73400878	1.00[AMR][1000 genomes]
rs73400879	1.00[AMR][1000 genomes]
rs73400880	1.00[AMR][1000 genomes]
rs9920507	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv904207	chr15:50290295-50352945	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1530	chr15:50302524-50347616	Strong transcription Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv569395	chr15:50345393-50437494	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50337400-50347400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr15:50339400-50347200	Weak transcription	Aorta	Aorta
3	chr15:50341600-50347200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr15:50342400-50347400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr15:50343000-50351200	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr15:50343400-50352000	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr15:50343400-50352400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr15:50343600-50348600	Enhancers	Fetal Intestine Large	intestine
9	chr15:50344200-50356600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr15:50344600-50347200	Weak transcription	Brain Hippocampus Middle	brain
11	chr15:50344600-50347400	Weak transcription	Colon Smooth Muscle	Colon
12	chr15:50344600-50347400	Weak transcription	Fetal Stomach	stomach
13	chr15:50344600-50347800	Weak transcription	Brain Substantia Nigra	brain
14	chr15:50344600-50349800	Weak transcription	Brain Angular Gyrus	brain
15	chr15:50344600-50349800	Weak transcription	Brain Cingulate Gyrus	brain
16	chr15:50344600-50351400	Weak transcription	Small Intestine	intestine
17	chr15:50344800-50350000	Weak transcription	A549	lung
18	chr15:50345200-50348000	Enhancers	Duodenum Mucosa	Duodenum
19	chr15:50345800-50348000	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr15:50345800-50348000	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr15:50345800-50350200	Weak transcription	Hela-S3	cervix
22	chr15:50345800-50350400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr15:50346000-50347400	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr15:50346400-50347800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr15:50346400-50348600	Enhancers	HSMMtube	muscle
26	chr15:50346400-50348800	Enhancers	NHLF	lung
27	chr15:50346600-50347200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr15:50347000-50347200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:50347000-50347200	Weak transcription	Fetal Intestine Small	intestine
30	chr15:50347000-50347200	Active TSS	Stomach Smooth Muscle	stomach
31	chr15:50347000-50347400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:50347000-50347400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr15:50347000-50347400	Flanking Active TSS	Fetal Lung	lung
34	chr15:50347000-50347400	Active TSS	Right Atrium	heart
35	chr15:50347000-50347400	Active TSS	HSMM	muscle
36	chr15:50347000-50347400	Active TSS	NHDF-Ad	bronchial
37	chr15:50347000-50347600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:50347000-50347600	Flanking Active TSS	Adipose Nuclei	Adipose
39	chr15:50347000-50347600	Flanking Active TSS	Osteobl	bone
40	chr15:50347000-50348000	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:50347000-50348400	Enhancers	Muscle Satellite Cultured Cells	--
42	chr15:50347000-50348400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr15:50347000-50348600	Enhancers	Rectal Smooth Muscle	rectum
44	chr15:50347000-50348800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr15:50347000-50351800	Enhancers	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links