Variant report

Variant	rs11962403
Chromosome Location	chr6:27480131-27480132
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:27443187..27445951-chr6:27477606..27480333,4	K562	blood:
2	chr6:27472621..27475271-chr6:27477554..27480516,2	MCF-7	breast:
3	chr6:27480119..27481874-chr6:27576209..27578820,2	MCF-7	breast:
4	chr6:27474407..27478375-chr6:27478575..27482330,4	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10946941	1.00[ASN][1000 genomes]
rs11750956	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751859	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753029	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11753248	1.00[ASN][1000 genomes]
rs11753483	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11753572	1.00[ASN][1000 genomes]
rs11754166	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756458	1.00[ASN][1000 genomes]
rs11757216	1.00[ASN][1000 genomes]
rs11757320	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11757748	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961333	0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11965377	1.00[ASN][1000 genomes]
rs11966553	1.00[ASN][1000 genomes]
rs11967073	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs11967759	1.00[ASN][1000 genomes]
rs11970095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs11970261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs11970451	1.00[ASN][1000 genomes]
rs2893912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs34979454	1.00[ASN][1000 genomes]
rs61025649	1.00[ASN][1000 genomes]
rs6933702	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[ASN][1000 genomes]
rs73738797	1.00[ASN][1000 genomes]
rs7743306	1.00[ASN][1000 genomes]
rs7744248	1.00[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9969094	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022797	chr6:27396961-27864277	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	390 gene(s)	inside rSNPs	diseases
2	nsv830617	chr6:27424769-27598595	Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
3	nsv462665	chr6:27458013-27547792	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv601203	chr6:27458013-27547792	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv1030256	chr6:27477726-27605842	Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:27475400-27482400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:27475400-27482600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:27479000-27481000	Weak transcription	K562	blood
4	chr6:27479800-27480200	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr6:27479800-27480200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:27480000-27480200	Enhancers	H9 Cell Line	embryonic stem cell
7	chr6:27480000-27480200	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr6:27480000-27480200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:27480000-27480400	Enhancers	H1 Cell Line	embryonic stem cell
10	chr6:27480000-27480400	Active TSS	iPS-20b Cell Line	embryonic stem cell

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