Variant report

Variant	rs12909182
Chromosome Location	chr15:76140860-76140861
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:76140669..76144139-chr15:76145486..76148047,3	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs12898403	0.91[EUR][1000 genomes]
rs12910038	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12910494	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12915152	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1499063	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17427165	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17427298	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17427842	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2441930	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35031760	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35656041	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3764189	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs57090077	0.81[EUR][1000 genomes]
rs62027608	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62027611	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62028932	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62028936	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8182013	0.83[EUR][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	nsv531903	chr15:75889302-76342128	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	nsv1044733	chr15:76120924-76228880	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv974601	chr15:76139204-76160467	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76137200-76166200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr15:76137600-76141400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr15:76137600-76141600	Enhancers	Fetal Heart	heart
4	chr15:76137600-76147000	Weak transcription	Fetal Muscle Trunk	muscle
5	chr15:76137600-76147600	Weak transcription	Fetal Intestine Small	intestine
6	chr15:76137600-76155400	Weak transcription	Stomach Mucosa	stomach
7	chr15:76137600-76165000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr15:76137800-76143000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:76137800-76152400	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr15:76137800-76165800	Weak transcription	Liver	Liver
11	chr15:76137800-76166000	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr15:76137800-76188400	Weak transcription	Brain Anterior Caudate	brain
13	chr15:76138000-76141200	Enhancers	Fetal Lung	lung
14	chr15:76138000-76141400	Enhancers	Primary T cells from cord blood	blood
15	chr15:76138000-76146000	Weak transcription	Right Ventricle	heart
16	chr15:76138000-76146800	Weak transcription	Osteobl	bone
17	chr15:76138000-76151000	Weak transcription	Primary B cells from cord blood	blood
18	chr15:76138000-76179600	Weak transcription	Small Intestine	intestine
19	chr15:76138200-76141000	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr15:76138200-76141800	Enhancers	Primary T helper naive cells from peripheral blood	blood
21	chr15:76138200-76141800	Weak transcription	Ovary	ovary
22	chr15:76138200-76142200	Enhancers	Primary T helper cells fromperipheralblood	blood
23	chr15:76138200-76142200	Enhancers	Primary T killer memory cells from peripheral blood	blood
24	chr15:76138200-76143600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr15:76138200-76143600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr15:76138200-76145200	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr15:76138200-76146000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr15:76138200-76146000	Weak transcription	Lung	lung
29	chr15:76138200-76146800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr15:76138200-76147000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr15:76138200-76147400	Weak transcription	Brain Hippocampus Middle	brain
32	chr15:76138200-76148200	Weak transcription	Fetal Intestine Large	intestine
33	chr15:76138200-76150600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr15:76138200-76150800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:76138200-76153600	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr15:76138200-76154000	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr15:76138200-76154200	Weak transcription	Gastric	stomach
38	chr15:76138200-76154200	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr15:76138200-76154200	Weak transcription	Right Atrium	heart
40	chr15:76138200-76161800	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr15:76138200-76166000	Weak transcription	Aorta	Aorta
42	chr15:76138200-76166000	Weak transcription	Colon Smooth Muscle	Colon
43	chr15:76138200-76166000	Weak transcription	Pancreas	Pancrea
44	chr15:76138200-76166000	Weak transcription	Spleen	Spleen
45	chr15:76138200-76183000	Weak transcription	Hela-S3	cervix
46	chr15:76138200-76195200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr15:76138200-76195400	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:76138400-76141200	Weak transcription	HSMMtube	muscle
49	chr15:76138400-76145600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr15:76138400-76146000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links