Variant report

Variant	rs17060018
Chromosome Location	chr6:131358173-131358174
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	chr6:131356533..131360824-chr6:131360872..131363958,3	MCF-7	breast:
2	chr6:131356781..131360402-chr6:131360756..131363630,4	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10499180	1.00[CHB][hapmap];0.85[MEX][hapmap];1.00[ASN][1000 genomes]
rs11968011	1.00[CHB][hapmap];0.85[MEX][hapmap];1.00[ASN][1000 genomes]
rs12333037	1.00[CHB][hapmap]
rs1406456	1.00[CHB][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1528863	1.00[CHB][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1977577	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2039509	1.00[CHB][hapmap]
rs2151070	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3822862	1.00[CHB][hapmap]
rs55677017	1.00[ASN][1000 genomes]
rs55741945	1.00[ASN][1000 genomes]
rs55812292	1.00[ASN][1000 genomes]
rs55909138	1.00[ASN][1000 genomes]
rs56009627	1.00[ASN][1000 genomes]
rs56059620	1.00[ASN][1000 genomes]
rs56091933	1.00[ASN][1000 genomes]
rs57155718	1.00[ASN][1000 genomes]
rs58822839	1.00[ASN][1000 genomes]
rs600306	1.00[CHB][hapmap]
rs602848	1.00[CHB][hapmap]
rs60446197	1.00[ASN][1000 genomes]
rs60773361	1.00[ASN][1000 genomes]
rs60836114	1.00[ASN][1000 genomes]
rs6906068	1.00[CHB][hapmap]
rs6907608	1.00[CHB][hapmap]
rs6908393	1.00[ASN][1000 genomes]
rs6910788	1.00[CHB][hapmap]
rs6922872	1.00[CHB][hapmap]
rs73621523	1.00[ASN][1000 genomes]
rs73621528	1.00[ASN][1000 genomes]
rs73621566	1.00[ASN][1000 genomes]
rs73621574	1.00[ASN][1000 genomes]
rs73621588	1.00[ASN][1000 genomes]
rs73623380	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73623396	1.00[ASN][1000 genomes]
rs73623492	1.00[ASN][1000 genomes]
rs73625103	1.00[ASN][1000 genomes]
rs73625624	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73774338	1.00[ASN][1000 genomes]
rs73774368	1.00[ASN][1000 genomes]
rs73774374	1.00[ASN][1000 genomes]
rs73774376	1.00[ASN][1000 genomes]
rs73774379	1.00[ASN][1000 genomes]
rs73775907	1.00[ASN][1000 genomes]
rs73775910	0.87[ASN][1000 genomes]
rs73775913	0.87[ASN][1000 genomes]
rs7741112	1.00[ASN][1000 genomes]
rs7754229	1.00[CHB][hapmap]
rs7761647	1.00[ASN][1000 genomes]
rs7762876	1.00[CHB][hapmap]
rs7766938	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs871628	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9483190	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032955	chr6:131298803-131818502	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538443	chr6:131298803-131818502	Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131346000-131375000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:131349000-131358800	Weak transcription	Pancreas	Pancrea
3	chr6:131351400-131359800	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr6:131351400-131360200	Weak transcription	Small Intestine	intestine
5	chr6:131351400-131361400	Weak transcription	Psoas Muscle	Psoas
6	chr6:131351400-131375000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:131351600-131358200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:131351600-131359400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:131351600-131359400	Weak transcription	Fetal Lung	lung
10	chr6:131351600-131360200	Weak transcription	Fetal Stomach	stomach
11	chr6:131351600-131374600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:131351800-131360000	Weak transcription	A549	lung
13	chr6:131352000-131359400	Weak transcription	HSMM	muscle
14	chr6:131352000-131360000	Weak transcription	NH-A	brain
15	chr6:131352200-131358800	Weak transcription	Lung	lung
16	chr6:131352200-131359400	Weak transcription	NHLF	lung
17	chr6:131352200-131359800	Weak transcription	Brain Substantia Nigra	brain
18	chr6:131352200-131360200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr6:131352200-131360200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:131352400-131374400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr6:131353800-131359800	Enhancers	HepG2	liver
22	chr6:131353800-131364000	Weak transcription	Ovary	ovary
23	chr6:131355200-131358800	Weak transcription	Aorta	Aorta
24	chr6:131356200-131359000	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr6:131356600-131375000	Weak transcription	Brain Angular Gyrus	brain
26	chr6:131357200-131360000	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr6:131357400-131358200	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr6:131357400-131358600	Enhancers	Adipose Nuclei	Adipose
29	chr6:131357400-131367200	Weak transcription	Fetal Intestine Small	intestine
30	chr6:131357600-131358200	Enhancers	Brain Cingulate Gyrus	brain
31	chr6:131357800-131358200	Enhancers	Brain Anterior Caudate	brain
32	chr6:131357800-131358400	Enhancers	Colon Smooth Muscle	Colon
33	chr6:131357800-131358600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:131358000-131358200	Enhancers	Fetal Muscle Leg	muscle
35	chr6:131358000-131358400	Enhancers	Brain Hippocampus Middle	brain
36	chr6:131358000-131358400	Enhancers	Left Ventricle	heart
37	chr6:131358000-131358600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr6:131358000-131358800	Weak transcription	NHDF-Ad	bronchial
39	chr6:131358000-131360000	Enhancers	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links