Variant report

Variant	rs541608
Chromosome Location	chr15:55394913-55394914
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:55393431..55395815-chr15:55395952..55398256,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10518799	0.83[EUR][1000 genomes]
rs11071167	0.92[ASN][1000 genomes]
rs1865475	0.88[EUR][1000 genomes]
rs28417136	0.83[EUR][1000 genomes]
rs28572587	0.83[EUR][1000 genomes]
rs28694196	0.83[EUR][1000 genomes]
rs489055	0.98[ASN][1000 genomes]
rs489105	0.98[ASN][1000 genomes]
rs491004	0.94[ASN][1000 genomes]
rs493244	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs496232	0.83[EUR][1000 genomes]
rs501639	0.88[EUR][1000 genomes]
rs501898	0.87[EUR][1000 genomes]
rs505918	0.94[ASN][1000 genomes]
rs527015	0.87[EUR][1000 genomes]
rs528628	0.88[EUR][1000 genomes]
rs541635	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs549231	0.98[ASN][1000 genomes]
rs551093	0.98[ASN][1000 genomes]
rs554383	0.88[EUR][1000 genomes]
rs561001	0.88[EUR][1000 genomes]
rs561702	0.83[EUR][1000 genomes]
rs564740	0.87[EUR][1000 genomes]
rs62018201	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6493749	0.82[EUR][1000 genomes]
rs7167792	0.88[EUR][1000 genomes]
rs7178925	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043176	chr15:55010228-55563000	Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1039471	chr15:55137606-55552555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55394600-55400400	Weak transcription	Brain Germinal Matrix	brain

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