Variant report

Variant	rs956550
Chromosome Location	chr6:79852740-79852741
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	chr6:79784760..79788222-chr6:79851456..79855536,3	MCF-7	breast:
2	chr6:79852069..79854687-chr6:79872579..79874335,2	K562	blood:

Variant related genes	Relation type
ENSG00000146247	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10806154	0.81[ASN][1000 genomes]
rs11758432	0.94[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs11964204	0.94[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs1338023	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs2275290	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs2275291	0.94[CHB][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs3805746	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs3818839	0.94[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs3929867	0.81[ASN][1000 genomes]
rs62411261	0.97[ASN][1000 genomes]
rs6940949	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7740307	0.94[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs7776138	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs9294130	0.94[CHB][hapmap];0.93[JPT][hapmap];0.95[ASN][1000 genomes]
rs9341760	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9343859	0.83[ASN][1000 genomes]
rs9343865	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9343867	0.86[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9343869	1.00[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs9343875	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9343876	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9350797	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs9350801	0.85[ASN][1000 genomes]
rs9352688	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs9352693	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs9352696	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9352701	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9359361	0.94[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs9359366	0.97[ASN][1000 genomes]
rs9361473	0.94[CHB][hapmap];0.93[CHD][hapmap];0.93[JPT][hapmap]
rs9361478	0.83[ASN][1000 genomes]
rs9361481	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs9361483	0.82[ASN][1000 genomes]
rs9361497	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9443642	0.89[ASN][1000 genomes]
rs9448600	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.81[ASN][1000 genomes]
rs9448601	0.81[ASN][1000 genomes]
rs9448616	0.94[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs9448647	0.99[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830706	chr6:79825910-79994878	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:79846200-79856400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:79852600-79853600	Enhancers	HepG2	liver

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