Variant report

Variant	rs9489780
Chromosome Location	chr6:120035271-120035272
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	chr6:120031831..120033418-chr6:120034835..120036928,2	MCF-7	breast:
2	chr6:120033761..120036459-chr6:120036999..120039234,2	MCF-7	breast:

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10484866	0.86[EUR][1000 genomes]
rs11153843	0.96[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs11757432	0.91[EUR][1000 genomes]
rs11757501	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11757553	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12198857	0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12200888	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12204573	0.89[CEU][hapmap]
rs12204589	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12205746	0.81[EUR][1000 genomes]
rs12207073	0.91[EUR][1000 genomes]
rs12211120	0.89[EUR][1000 genomes]
rs12211253	0.85[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12211678	0.86[EUR][1000 genomes]
rs12212825	0.98[EUR][1000 genomes]
rs12213166	0.81[EUR][1000 genomes]
rs13193709	0.91[EUR][1000 genomes]
rs13194523	0.89[EUR][1000 genomes]
rs13208384	0.98[EUR][1000 genomes]
rs13209823	0.81[EUR][1000 genomes]
rs1341497	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1417843	0.89[EUR][1000 genomes]
rs17081512	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17174818	0.89[EUR][1000 genomes]
rs17175669	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17254459	0.89[EUR][1000 genomes]
rs1884252	0.83[EUR][1000 genomes]
rs1884253	0.81[EUR][1000 genomes]
rs2077847	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34024607	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34663676	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57181464	0.81[ASN][1000 genomes]
rs57243130	0.85[EUR][1000 genomes]
rs59241522	0.81[ASN][1000 genomes]
rs59296586	0.81[ASN][1000 genomes]
rs59476622	0.81[ASN][1000 genomes]
rs61533190	0.81[ASN][1000 genomes]
rs61550882	0.84[ASN][1000 genomes]
rs6914520	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6919761	0.81[EUR][1000 genomes]
rs6922820	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6927271	0.81[EUR][1000 genomes]
rs727606	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs731487	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs7757952	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs7764925	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9285434	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9320701	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9387674	0.81[EUR][1000 genomes]
rs9481956	0.91[EUR][1000 genomes]
rs9489767	0.90[AFR][1000 genomes]
rs9489782	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9489787	0.83[EUR][1000 genomes]
rs991356	0.90[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3447598	chr6:119558591-120119384	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	esv3389526	chr6:119558598-120190087	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3442553	chr6:119742069-120076777	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1027370	chr6:119869409-120056608	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv538431	chr6:119869409-120056608	Weak transcription Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv1028580	chr6:120032073-120095538	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 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	chr6:120034800-120035400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr6:120035000-120035400	Enhancers	NHEK	skin

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