Variant report

Variant	rs6770664
Chromosome Location	chr3:180293942-180293943
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr3:180293566-180293958	SH-SY5Y	brain:	n/a	chr3:180293765-180293772 chr3:180293765-180293772 chr3:180293765-180293776 chr3:180293760-180293776 chr3:180293758-180293779 chr3:180293763-180293772 chr3:180293763-180293773 chr3:180293765-180293772
2	GATA2	chr3:180293400-180293947	SH-SY5Y	brain:	n/a	chr3:180293765-180293772 chr3:180293765-180293772 chr3:180293765-180293776 chr3:180293760-180293776 chr3:180293758-180293779 chr3:180293763-180293772 chr3:180293763-180293773 chr3:180293765-180293772

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:180288597..180290197-chr3:180293496..180295208,2	MCF-7	breast:

Variant related genes	Relation type
RNU6-486P	TF binding region

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1353679	0.95[EUR][1000 genomes]
rs1532485	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1603658	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17707963	0.87[EUR][1000 genomes]
rs17708913	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17764356	1.00[CEU][hapmap]
rs28385473	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28495789	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62291004	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62291005	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62291006	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62291007	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62291008	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62291009	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62291043	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62291045	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62291048	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6774942	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7626274	0.80[EUR][1000 genomes]
rs9290705	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs9819839	0.88[EUR][1000 genomes]
rs9837678	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9846858	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9847201	0.88[EUR][1000 genomes]
rs9857489	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9858483	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9864959	0.88[EUR][1000 genomes]
rs9865590	0.80[YRI][hapmap]
rs9866580	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9872076	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs9876153	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9877497	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][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	nsv1007831	chr3:180162003-180348203	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv536818	chr3:180162003-180348203	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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