Variant report

Variant	rs7164564
Chromosome Location	chr15:40623593-40623594
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40621770..40623974-chr15:40697001..40698566,2	MCF-7	breast:
2	chr15:40616336..40620318-chr15:40620739..40624439,7	MCF-7	breast:
3	chr15:40619706..40623827-chr15:40624940..40628910,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000259330	Chromatin interaction
ENSG00000128928	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1077476	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11070264	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12081	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2118961	0.88[AMR][1000 genomes]
rs2289333	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2289334	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4923863	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4923864	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4924455	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7164747	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7173747	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs748245	0.82[ASN][1000 genomes]
rs882829	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs934937	0.90[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	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv510660	chr15:40552906-40721883	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
3	nsv827305	chr15:40596162-40625922	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40617200-40630200	Weak transcription	A549	lung
2	chr15:40617400-40623800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr15:40617400-40624000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr15:40617400-40626000	Weak transcription	Liver	Liver
5	chr15:40617400-40626000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr15:40617400-40626400	Weak transcription	Pancreas	Pancrea
7	chr15:40617400-40627000	Weak transcription	Gastric	stomach
8	chr15:40617800-40625000	Weak transcription	Psoas Muscle	Psoas
9	chr15:40618000-40624200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr15:40618000-40624400	Enhancers	NHDF-Ad	bronchial
11	chr15:40618000-40625800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr15:40618000-40625800	Weak transcription	Dnd41	blood
13	chr15:40618200-40625800	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr15:40618200-40626000	Weak transcription	Stomach Mucosa	stomach
15	chr15:40618400-40624200	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:40618400-40624400	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr15:40618400-40624600	Weak transcription	Primary B cells from cord blood	blood
18	chr15:40618400-40625800	Weak transcription	Primary B cells from peripheral blood	blood
19	chr15:40618400-40625800	Weak transcription	Esophagus	oesophagus
20	chr15:40618400-40626800	Weak transcription	Small Intestine	intestine
21	chr15:40618400-40628200	Weak transcription	Brain Germinal Matrix	brain
22	chr15:40618800-40623600	Enhancers	Brain Hippocampus Middle	brain
23	chr15:40619400-40623600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr15:40619400-40624200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
25	chr15:40619400-40624800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr15:40619400-40625400	Genic enhancers	Fetal Stomach	stomach
27	chr15:40619400-40627400	Enhancers	Placenta	Placenta
28	chr15:40619600-40623800	Enhancers	Fetal Lung	lung
29	chr15:40619600-40630400	Enhancers	Primary hematopoietic stem cells	blood
30	chr15:40619800-40625000	Enhancers	Fetal Muscle Leg	muscle
31	chr15:40620000-40623600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr15:40620000-40626000	Enhancers	Rectal Smooth Muscle	rectum
33	chr15:40620000-40627800	Enhancers	Left Ventricle	heart
34	chr15:40620400-40628200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr15:40620800-40623600	Enhancers	Brain Cingulate Gyrus	brain
36	chr15:40620800-40624800	Enhancers	Fetal Muscle Trunk	muscle
37	chr15:40620800-40626000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr15:40620800-40629600	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr15:40621000-40625200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
40	chr15:40621000-40626000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr15:40621000-40626000	Enhancers	Colon Smooth Muscle	Colon
42	chr15:40621000-40627000	Enhancers	HSMMtube	muscle
43	chr15:40621000-40630200	Weak transcription	HepG2	liver
44	chr15:40621000-40637600	Enhancers	Fetal Heart	heart
45	chr15:40621200-40625200	Weak transcription	Adipose Nuclei	Adipose
46	chr15:40621200-40625800	Weak transcription	Thymus	Thymus
47	chr15:40621200-40626200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
48	chr15:40621200-40626200	Weak transcription	Fetal Brain Female	brain
49	chr15:40621200-40633400	Weak transcription	Fetal Kidney	kidney
50	chr15:40621400-40624400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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