Variant report

Variant	rs9925546
Chromosome Location	chr16:79810572-79810573
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:79810413..79812648-chr16:79818258..79820940,2	MCF-7	breast:
2	chr16:79810120..79812972-chr16:79839145..79841133,2	MCF-7	breast:
3	chr16:79809357..79812774-chr16:79814579..79816705,4	MCF-7	breast:
4	chr16:79802602..79806589-chr16:79809015..79812346,4	MCF-7	breast:
5	chr16:79793734..79796159-chr16:79809178..79810688,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260876	Chromatin interaction
ENSG00000261390	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10400993	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12102812	1.00[AMR][1000 genomes]
rs13333097	1.00[AMR][1000 genomes]
rs13335246	1.00[AMR][1000 genomes]
rs13336479	1.00[AMR][1000 genomes]
rs13338029	1.00[AMR][1000 genomes]
rs28537940	1.00[AMR][1000 genomes]
rs28621047	1.00[AMR][1000 genomes]
rs28658309	1.00[AMR][1000 genomes]
rs28757812	1.00[AMR][1000 genomes]
rs4296270	1.00[AMR][1000 genomes]
rs61321663	1.00[AMR][1000 genomes]
rs61617481	1.00[AMR][1000 genomes]
rs7190702	1.00[AMR][1000 genomes]
rs7201541	1.00[AMR][1000 genomes]
rs73571213	1.00[AMR][1000 genomes]
rs73571225	1.00[AMR][1000 genomes]
rs73571226	1.00[AMR][1000 genomes]
rs73571228	1.00[AMR][1000 genomes]
rs73571232	1.00[AMR][1000 genomes]
rs73573103	1.00[AMR][1000 genomes]
rs73573110	1.00[AMR][1000 genomes]
rs73573128	1.00[AMR][1000 genomes]
rs73573132	1.00[AMR][1000 genomes]
rs9925324	1.00[AMR][1000 genomes]
rs9929728	1.00[AMR][1000 genomes]
rs9931740	1.00[AMR][1000 genomes]
rs9933996	1.00[AMR][1000 genomes]
rs9937545	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv530714	chr16:79661581-79925435	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv833296	chr16:79692236-79889727	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv833297	chr16:79732501-79920419	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
5	esv2755409	chr16:79776699-79816299	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:79808600-79811000	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr16:79809000-79810600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr16:79809000-79810600	Enhancers	NHEK	skin
4	chr16:79809200-79811000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr16:79809200-79811000	Enhancers	HMEC	breast
6	chr16:79809400-79810800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr16:79809600-79810800	Enhancers	Rectal Mucosa Donor 29	rectum
8	chr16:79810200-79810600	Enhancers	Brain Hippocampus Middle	brain
9	chr16:79810200-79810600	Enhancers	Fetal Intestine Small	intestine
10	chr16:79810200-79810600	Flanking Active TSS	Osteobl	bone
11	chr16:79810200-79810800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr16:79810200-79810800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr16:79810200-79810800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr16:79810200-79810800	Enhancers	Adipose Nuclei	Adipose
15	chr16:79810200-79810800	Enhancers	Fetal Intestine Large	intestine
16	chr16:79810200-79810800	Enhancers	Thymus	Thymus
17	chr16:79810200-79810800	Enhancers	NHLF	lung
18	chr16:79810200-79811000	Enhancers	H1 Cell Line	embryonic stem cell
19	chr16:79810200-79811000	Enhancers	HUES48 Cell Line	embryonic stem cell
20	chr16:79810200-79811000	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr16:79810200-79811000	Enhancers	Muscle Satellite Cultured Cells	--
22	chr16:79810200-79811000	Enhancers	Fetal Kidney	kidney
23	chr16:79810200-79811000	Enhancers	Fetal Lung	lung
24	chr16:79810200-79811000	Enhancers	Fetal Muscle Leg	muscle
25	chr16:79810200-79811000	Enhancers	Placenta	Placenta
26	chr16:79810200-79811000	Enhancers	Fetal Thymus	thymus
27	chr16:79810200-79811000	Enhancers	Ovary	ovary
28	chr16:79810200-79811000	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr16:79810200-79811000	Enhancers	NH-A	brain
30	chr16:79810200-79811200	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr16:79810200-79811200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr16:79810200-79811200	Enhancers	Fetal Stomach	stomach
33	chr16:79810400-79810600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr16:79810400-79810600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr16:79810400-79810600	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr16:79810400-79810600	Flanking Bivalent TSS/Enh	Brain Anterior Caudate	brain
37	chr16:79810400-79810600	Enhancers	Colonic Mucosa	Colon
38	chr16:79810400-79810800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr16:79810400-79810800	Flanking Active TSS	Brain Cingulate Gyrus	brain
40	chr16:79810400-79810800	Weak transcription	Duodenum Mucosa	Duodenum
41	chr16:79810400-79810800	Enhancers	Fetal Brain Male	brain
42	chr16:79810400-79810800	Enhancers	Placenta Amnion	Placenta Amnion
43	chr16:79810400-79810800	Enhancers	K562	blood
44	chr16:79810400-79810800	Flanking Active TSS	NHDF-Ad	bronchial
45	chr16:79810400-79811000	Enhancers	iPS-15b Cell Line	embryonic stem cell
46	chr16:79810400-79811000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr16:79810400-79811000	Enhancers	Esophagus	oesophagus
48	chr16:79810400-79811000	Enhancers	HSMMtube	muscle
49	chr16:79810400-79811200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr16:79810400-79811400	Enhancers	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links