Variant report

Variant	rs790287
Chromosome Location	chr9:102068344-102068345
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:101982802..101985328-chr9:102065308..102068359,3	MCF-7	breast:
2	chr9:102067677..102069694-chr9:102073108..102075861,2	K562	blood:

Variant related genes	Relation type
ENSG00000119523	Chromatin interaction
ENSG00000106803	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1018150	1.00[CEU][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs162614	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs162615	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs162619	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs162625	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs162626	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs162627	1.00[CEU][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs162631	1.00[CEU][hapmap];0.81[AMR][1000 genomes]
rs1648620	1.00[CEU][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1648621	1.00[CEU][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1648622	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1648623	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1699412	0.85[AMR][1000 genomes]
rs1699416	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1699420	1.00[CEU][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1699421	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1699422	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs170462	1.00[CEU][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1746145	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1746146	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1746147	1.00[CEU][hapmap];0.85[AMR][1000 genomes]
rs1746148	1.00[CEU][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1746159	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs179238	0.83[AMR][1000 genomes]
rs182703	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs182763	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs186630	1.00[CEU][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs186631	0.81[AMR][1000 genomes]
rs186632	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs191231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs191291	1.00[CEU][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs193019	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs328957	1.00[CEU][hapmap]
rs366150	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs369222	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs376504	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs391888	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs393321	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs395420	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs396479	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs400935	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs403886	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs422263	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs431892	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs438361	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs438521	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs450698	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs454339	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs701370	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs790190	1.00[CEU][hapmap];0.87[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs790285	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs790286	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs790288	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893620	chr9:102029791-102194921	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv972435	chr9:102067448-102071368	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv831667	chr9:102068047-102285691	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr9:102059200-102068600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:102061800-102069400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr9:102062400-102070200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:102066600-102069800	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr9:102066800-102069800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr9:102068000-102070200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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