Variant report

Variant	rs10078397
Chromosome Location	chr5:107731010-107731011
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	chr5:107725102..107727598-chr5:107729614..107733735,4	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10035966	0.92[EUR][1000 genomes]
rs10045508	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10054662	0.89[EUR][1000 genomes]
rs10061049	0.93[CEU][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs10455007	0.92[YRI][hapmap]
rs10463587	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10477896	0.93[CEU][hapmap]
rs10515386	0.83[CHB][hapmap]
rs11240962	0.92[EUR][1000 genomes]
rs11742268	0.91[EUR][1000 genomes]
rs11948261	0.92[EUR][1000 genomes]
rs11949077	0.91[EUR][1000 genomes]
rs11949079	0.91[EUR][1000 genomes]
rs12163950	0.83[CHB][hapmap]
rs12187433	0.93[CEU][hapmap];0.89[EUR][1000 genomes]
rs12656256	0.87[CHB][hapmap]
rs12656744	0.80[ASN][1000 genomes]
rs12656817	0.83[CHB][hapmap]
rs12657054	0.81[ASN][1000 genomes]
rs12659121	0.83[CHB][hapmap]
rs12659135	0.83[CHB][hapmap]
rs13361152	0.92[EUR][1000 genomes]
rs1510967	0.92[EUR][1000 genomes]
rs17161236	0.83[CHB][hapmap]
rs17161254	0.87[CHB][hapmap]
rs17161284	0.83[CHB][hapmap]
rs17161304	0.87[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs17161316	0.87[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap]
rs17388874	0.88[EUR][1000 genomes]
rs17454114	1.00[CEU][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs1965392	0.83[CHB][hapmap]
rs2063422	0.83[CHB][hapmap]
rs2112303	0.81[TSI][hapmap]
rs28572757	0.92[EUR][1000 genomes]
rs2910790	0.82[CHB][hapmap]
rs2966787	0.83[CHB][hapmap]
rs2966791	0.86[CHB][hapmap]
rs2966801	0.83[CHB][hapmap]
rs4413518	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4463170	0.83[CHB][hapmap]
rs55672116	0.82[EUR][1000 genomes]
rs59423465	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs60045633	0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60896544	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs62362279	0.90[EUR][1000 genomes]
rs62362281	0.89[EUR][1000 genomes]
rs62362302	0.88[EUR][1000 genomes]
rs6876738	0.94[EUR][1000 genomes]
rs6881232	0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6895295	0.91[EUR][1000 genomes]
rs7714342	1.00[CEU][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes]
rs7720469	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7720841	0.97[EUR][1000 genomes];0.81[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	nsv882683	chr5:107476501-107769095	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv882686	chr5:107564746-107769095	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	esv2755544	chr5:107614101-107748101	Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 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	chr5:107718800-107731200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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