Variant report

Variant	rs5997846
Chromosome Location	chr22:31428853-31428854
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:31427554..31430340-chr22:31475829..31478342,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000183963	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1003480	0.89[CEU][hapmap];0.82[GIH][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.83[YRI][hapmap]
rs1005252	0.92[CEU][hapmap];0.96[YRI][hapmap]
rs1017065	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10854601	0.89[YRI][hapmap]
rs12484162	0.90[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs12484974	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2074578	0.83[ASW][hapmap];0.92[CEU][hapmap];0.82[GIH][hapmap];0.82[TSI][hapmap];0.89[YRI][hapmap]
rs2240175	0.89[YRI][hapmap]
rs2240177	0.96[YRI][hapmap]
rs2240179	0.96[YRI][hapmap]
rs2240180	0.89[YRI][hapmap]
rs2240182	0.83[ASW][hapmap];0.92[CEU][hapmap];0.81[GIH][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap];0.96[YRI][hapmap]
rs2240183	0.96[YRI][hapmap]
rs2285918	0.92[CEU][hapmap];0.96[YRI][hapmap]
rs28360515	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3747151	0.96[YRI][hapmap]
rs3788426	0.96[YRI][hapmap]
rs3804085	0.93[YRI][hapmap]
rs4820916	0.96[YRI][hapmap]
rs5749186	0.88[CEU][hapmap];0.93[YRI][hapmap]
rs5753369	0.89[YRI][hapmap]
rs5753394	0.89[YRI][hapmap]
rs5753398	0.89[CEU][hapmap];0.96[YRI][hapmap]
rs5753407	0.96[YRI][hapmap]
rs5753408	0.96[YRI][hapmap]
rs5753410	0.96[YRI][hapmap]
rs59923821	0.87[ASN][1000 genomes]
rs5997830	0.96[YRI][hapmap]
rs5997838	0.96[YRI][hapmap]
rs5997847	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6518731	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7284767	0.96[YRI][hapmap]
rs7291361	0.96[YRI][hapmap]
rs737924	0.96[YRI][hapmap]
rs739896	0.93[YRI][hapmap]
rs8135974	0.96[YRI][hapmap]
rs9609183	1.00[YRI][hapmap]

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	nsv9896	chr22:31369204-31513933	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
2	nsv966103	chr22:31410201-31452981	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv588891	chr22:31420142-31428853	Inactive region	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5997846	FBXO7	cis	parietal	SCAN

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

No data

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