Variant report

Variant	rs3748662
Chromosome Location	chr1:222697088-222697089
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	chr1:222695211..222697098-chr1:222762950..222764496,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000225265	Chromatin interaction
ENSG00000143498	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10495191	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1487523	1.00[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17163157	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17163177	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17163185	0.95[CEU][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs17163186	0.92[EUR][1000 genomes]
rs1890069	0.89[GIH][hapmap]
rs34151606	0.95[EUR][1000 genomes]
rs34229050	0.93[EUR][1000 genomes]
rs34513020	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34917654	0.95[EUR][1000 genomes]
rs35147531	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35241541	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35280999	0.95[EUR][1000 genomes]
rs35455442	0.95[CEU][hapmap];0.86[TSI][hapmap];0.93[EUR][1000 genomes]
rs35692317	0.89[EUR][1000 genomes]
rs35746652	0.95[CEU][hapmap];0.83[TSI][hapmap];0.95[EUR][1000 genomes]
rs35832897	0.95[EUR][1000 genomes]
rs35917524	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35948365	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3748664	0.95[EUR][1000 genomes]
rs3748666	0.95[EUR][1000 genomes]
rs4846764	0.95[CEU][hapmap];0.86[TSI][hapmap];0.95[EUR][1000 genomes]
rs4846765	0.93[EUR][1000 genomes]
rs61825519	0.95[EUR][1000 genomes]
rs61825520	0.95[EUR][1000 genomes]
rs61825521	0.95[EUR][1000 genomes]
rs61825522	0.95[EUR][1000 genomes]
rs66459971	0.91[AMR][1000 genomes];0.97[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	nsv873203	chr1:222332906-222775000	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv999185	chr1:222500725-223278032	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv535304	chr1:222500725-223278032	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:222695200-222699600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr1:222696600-222698000	Enhancers	NHDF-Ad	bronchial
3	chr1:222697000-222697400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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