Variant report

Variant	rs6427216
Chromosome Location	chr1:169754402-169754403
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:169751349..169757764-chr1:169760418..169766538,11	K562	blood:
2	chr1:169754064..169755659-chr1:169758806..169760332,2	MCF-7	breast:
3	chr1:169747522..169750361-chr1:169754241..169756814,2	MCF-7	breast:
4	chr1:169753568..169755601-chr1:169755944..169758258,2	MCF-7	breast:
5	chr1:169750643..169754945-chr1:169761592..169765030,6	MCF-7	breast:
6	chr1:169751762..169754671-chr1:169756355..169758348,3	K562	blood:

Variant related genes	Relation type
ENSG00000171806	Chromatin interaction
ENSG00000000460	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10157246	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10157266	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10753794	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10753795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10753796	0.93[CEU][hapmap];0.87[EUR][1000 genomes]
rs10919236	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10919237	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10919238	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10919240	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10919242	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10919243	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs11588275	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12035144	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12129417	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12404614	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2205845	0.81[CEU][hapmap]
rs2420507	0.92[EUR][1000 genomes]
rs3753311	0.81[CEU][hapmap]
rs6427219	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6676623	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6676718	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6683782	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6686522	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6696884	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs6701718	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs722511	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9728301	0.82[AMR][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	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169749400-169761400	Weak transcription	Liver	Liver
2	chr1:169750800-169762800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr1:169751600-169760200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:169751600-169762600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:169752600-169760200	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr1:169753600-169763000	Weak transcription	HMEC	breast
7	chr1:169754000-169754600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr1:169754200-169754600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr1:169754200-169755000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:169754400-169754600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:169754400-169760800	Weak transcription	Dnd41	blood

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