Variant report

Variant	rs2151069
Chromosome Location	chr6:131358425-131358426
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	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: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1043598	0.92[JPT][hapmap]
rs10499174	0.92[JPT][hapmap]
rs12661081	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12664355	0.92[JPT][hapmap]
rs12965	0.92[JPT][hapmap]
rs13193246	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1332490	0.84[CEU][hapmap]
rs1332491	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1338905	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17059681	0.92[JPT][hapmap]
rs17059683	0.93[JPT][hapmap]
rs17059698	0.93[JPT][hapmap]
rs17059702	0.93[JPT][hapmap]
rs17059896	0.93[JPT][hapmap];0.99[ASN][1000 genomes]
rs17059925	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs17831009	0.92[JPT][hapmap]
rs1888959	0.84[CEU][hapmap]
rs1976982	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2007339	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2225557	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2275063	0.93[JPT][hapmap]
rs2275065	0.81[ASN][1000 genomes]
rs3777450	0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs3777453	0.85[CHB][hapmap];0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs3777463	0.86[CHB][hapmap];0.84[JPT][hapmap];0.90[ASN][1000 genomes]
rs3822864	0.92[JPT][hapmap];0.81[ASN][1000 genomes]
rs4895902	0.84[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4897480	0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897481	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897482	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4897490	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56027377	0.81[ASN][1000 genomes]
rs6569716	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6569718	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6569720	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6569722	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6569725	0.84[ASN][1000 genomes]
rs6900810	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908917	0.84[CEU][hapmap]
rs6928986	0.84[CEU][hapmap]
rs6942081	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73623428	0.99[ASN][1000 genomes]
rs73774307	0.81[ASN][1000 genomes]
rs73774328	0.91[ASN][1000 genomes]
rs7742376	0.84[CEU][hapmap]
rs7747881	0.86[CHB][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs7765007	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7765757	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7769153	0.86[CHB][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs9321268	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9372988	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9689026	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]

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:38 , 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	chr6:131351600-131359400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr6:131351600-131359400	Weak transcription	Fetal Lung	lung
9	chr6:131351600-131360200	Weak transcription	Fetal Stomach	stomach
10	chr6:131351600-131374600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:131351800-131360000	Weak transcription	A549	lung
12	chr6:131352000-131359400	Weak transcription	HSMM	muscle
13	chr6:131352000-131360000	Weak transcription	NH-A	brain
14	chr6:131352200-131358800	Weak transcription	Lung	lung
15	chr6:131352200-131359400	Weak transcription	NHLF	lung
16	chr6:131352200-131359800	Weak transcription	Brain Substantia Nigra	brain
17	chr6:131352200-131360200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr6:131352200-131360200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr6:131352400-131374400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:131353800-131359800	Enhancers	HepG2	liver
21	chr6:131353800-131364000	Weak transcription	Ovary	ovary
22	chr6:131355200-131358800	Weak transcription	Aorta	Aorta
23	chr6:131356200-131359000	Enhancers	Sigmoid Colon	Sigmoid Colon
24	chr6:131356600-131375000	Weak transcription	Brain Angular Gyrus	brain
25	chr6:131357200-131360000	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:131357400-131358600	Enhancers	Adipose Nuclei	Adipose
27	chr6:131357400-131367200	Weak transcription	Fetal Intestine Small	intestine
28	chr6:131357800-131358600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:131358000-131358600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
30	chr6:131358000-131358800	Weak transcription	NHDF-Ad	bronchial
31	chr6:131358000-131360000	Enhancers	Osteobl	bone
32	chr6:131358200-131359800	Weak transcription	Brain Anterior Caudate	brain
33	chr6:131358200-131359800	Weak transcription	Brain Cingulate Gyrus	brain
34	chr6:131358200-131360200	Weak transcription	Fetal Muscle Leg	muscle
35	chr6:131358400-131358600	Weak transcription	Left Ventricle	heart
36	chr6:131358400-131359400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr6:131358400-131359800	Weak transcription	Brain Hippocampus Middle	brain
38	chr6:131358400-131359800	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links