Variant report

Variant	rs1407427
Chromosome Location	chr1:185907671-185907672
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	chr1:185902705..185905298-chr1:185906872..185908560,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10047250	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs10157843	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10489717	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs10489718	1.00[CEU][hapmap]
rs10911783	1.00[AMR][1000 genomes]
rs10911784	1.00[ASW][hapmap];1.00[CEU][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10911785	1.00[CEU][hapmap]
rs10911787	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AMR][1000 genomes]
rs10911788	1.00[CEU][hapmap]
rs10911789	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs1116146	0.91[EUR][1000 genomes]
rs11580879	0.91[EUR][1000 genomes]
rs11586768	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11586771	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11589455	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.91[EUR][1000 genomes]
rs11800990	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs11804668	1.00[CEU][hapmap]
rs12059676	1.00[EUR][1000 genomes]
rs12062879	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs12066427	1.00[MEX][hapmap]
rs12067376	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs12068599	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12068829	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12073492	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12077084	0.91[EUR][1000 genomes]
rs12088513	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12088571	1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12094899	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1322361	1.00[CEU][hapmap];0.83[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1555494	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs16824945	1.00[CEU][hapmap];1.00[GIH][hapmap]
rs28535260	0.91[EUR][1000 genomes]
rs28792457	0.84[EUR][1000 genomes]
rs35875123	0.91[EUR][1000 genomes]
rs41397650	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap]
rs4288554	1.00[CEU][hapmap]
rs6425011	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6662653	1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs6675465	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs72718862	0.91[EUR][1000 genomes]
rs72718864	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72718865	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72718867	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72718875	0.91[EUR][1000 genomes]
rs72718880	0.91[EUR][1000 genomes]
rs7539719	1.00[CEU][hapmap];0.85[TSI][hapmap]
rs7546152	1.00[CEU][hapmap];1.00[TSI][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	nsv548398	chr1:185136458-186003094	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	esv3424090	chr1:185679718-186270877	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:185883000-185907800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr1:185892400-185909800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:185895200-185932200	Weak transcription	Aorta	Aorta
4	chr1:185903200-185913000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:185904600-185908200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr1:185906800-185907800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr1:185907200-185908000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
8	chr1:185907400-185907800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
9	chr1:185907400-185908000	Enhancers	Hela-S3	cervix
10	chr1:185907400-185908600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr1:185907600-185908000	Enhancers	Fetal Kidney	kidney
12	chr1:185907600-185908800	Enhancers	iPS-18 Cell Line	embryonic stem cell

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