Variant report

Variant	rs13088429
Chromosome Location	chr3:141181790-141181791
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141179479..141182374-chr3:141204762..141206399,2	MCF-7	breast:
2	chr3:141120677..141122286-chr3:141181559..141183059,2	MCF-7	breast:
3	chr3:141179908..141182127-chr3:141182376..141185079,2	K562	blood:

Variant related genes	Relation type
ENSG00000177311	Chromatin interaction
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1077181	0.96[CEU][hapmap];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11557453	0.84[CEU][hapmap]
rs11707656	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11708253	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709875	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11711318	0.81[EUR][1000 genomes]
rs11714208	0.84[CEU][hapmap]
rs11716776	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717144	0.92[CEU][hapmap]
rs11717842	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695734	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695735	0.96[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695736	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695740	0.87[CEU][hapmap]
rs12695741	0.90[CEU][hapmap]
rs12695743	0.84[CEU][hapmap]
rs13059128	0.88[CEU][hapmap];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13072100	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13078872	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13083593	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13084444	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095168	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs13098300	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13099945	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs1863870	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2312194	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2312266	1.00[ASN][1000 genomes]
rs34317570	0.83[EUR][1000 genomes]
rs34342794	0.83[EUR][1000 genomes]
rs3806647	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71619392	0.81[EUR][1000 genomes]
rs720663	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs7636914	0.80[AMR][1000 genomes]
rs7651511	0.83[EUR][1000 genomes]
rs9289629	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9289634	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9808953	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs9822575	0.92[CEU][hapmap]
rs9823528	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9830055	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs9833121	0.92[CEU][hapmap]
rs9836050	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs9836818	0.83[EUR][1000 genomes]
rs9837202	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838230	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9838419	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9840697	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9843866	0.83[EUR][1000 genomes]
rs9849180	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850416	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs9865971	0.96[CEU][hapmap];0.83[EUR][1000 genomes]
rs9868956	0.92[CEU][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9870749	0.92[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829744	chr3:141016749-141189168	Genic enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141168600-141181800	Weak transcription	Aorta	Aorta
2	chr3:141174200-141182200	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:141174200-141182400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:141174200-141182400	Weak transcription	Brain Substantia Nigra	brain
5	chr3:141176800-141183600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:141177000-141183800	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr3:141177000-141184000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
8	chr3:141177000-141189600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:141178000-141184200	Weak transcription	NHLF	lung
10	chr3:141178000-141188200	Weak transcription	NHDF-Ad	bronchial
11	chr3:141179400-141183800	Weak transcription	NH-A	brain
12	chr3:141179600-141182400	Weak transcription	A549	lung
13	chr3:141179600-141183800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:141179600-141184000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:141179600-141184000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:141179600-141184000	Weak transcription	Osteobl	bone
17	chr3:141180800-141181800	Enhancers	Primary B cells from peripheral blood	blood
18	chr3:141180800-141182400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr3:141181000-141181800	Enhancers	GM12878-XiMat	blood
20	chr3:141181000-141182200	Enhancers	HepG2	liver
21	chr3:141181400-141184400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr3:141181600-141182600	Enhancers	Pancreas	Pancrea

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