Variant report

Variant	rs477801
Chromosome Location	chr6:147140769-147140770
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	chr6:147139442..147141026-chr6:147141796..147143486,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1119876	0.83[JPT][hapmap]
rs1324680	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1324685	0.83[JPT][hapmap]
rs1408574	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1924691	0.82[CHD][hapmap];0.83[JPT][hapmap];1.00[YRI][hapmap]
rs1924695	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2328769	0.83[JPT][hapmap]
rs2328770	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs259370	0.85[CEU][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs259371	0.82[ASW][hapmap];0.92[CEU][hapmap];0.82[CHB][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs259385	0.85[CEU][hapmap];0.82[GIH][hapmap];0.85[JPT][hapmap]
rs259386	0.81[CEU][hapmap];0.84[JPT][hapmap]
rs4896892	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6570778	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs674781	0.85[EUR][1000 genomes]
rs674792	0.85[EUR][1000 genomes]
rs6915391	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6926089	0.85[EUR][1000 genomes]
rs6929209	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7744139	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7755795	0.83[JPT][hapmap]
rs9322079	0.82[CEU][hapmap]
rs9377032	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs9390437	0.83[JPT][hapmap]
rs9399587	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];0.92[JPT][hapmap];0.93[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9403826	0.81[JPT][hapmap]
rs9497647	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]

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	nsv830838	chr6:147090745-147274669	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv966634	chr6:147128760-147141217	Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:147136000-147141200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr6:147137800-147141400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:147140400-147141600	Enhancers	Osteobl	bone
4	chr6:147140600-147141600	Enhancers	K562	blood
5	chr6:147140600-147141600	Enhancers	NH-A	brain
6	chr6:147140600-147141800	Enhancers	ES-I3 Cell Line	embryonic stem cell

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