Variant report

Variant	rs6533940
Chromosome Location	chr4:79621439-79621440
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	chr4:79620166..79622821-chr4:79623905..79627089,5	K562	blood:
2	chr4:79619228..79620964-chr4:79621266..79623759,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10008008	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10008069	0.95[TSI][hapmap];0.87[EUR][1000 genomes]
rs10029214	0.81[TSI][hapmap]
rs10084949	0.91[EUR][1000 genomes]
rs1134123	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1134124	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11931947	0.87[EUR][1000 genomes]
rs13101964	0.88[EUR][1000 genomes]
rs13133277	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1346144	0.96[EUR][1000 genomes]
rs1346145	0.91[CEU][hapmap];0.83[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1469289	0.91[EUR][1000 genomes]
rs1469290	0.91[EUR][1000 genomes]
rs1582759	0.91[EUR][1000 genomes]
rs1806906	0.84[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1834519	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.97[TSI][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1966537	0.90[EUR][1000 genomes]
rs2867465	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2867466	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2903578	0.91[EUR][1000 genomes]
rs4074675	0.85[EUR][1000 genomes]
rs4257676	0.94[CEU][hapmap];0.87[YRI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4264856	0.95[CEU][hapmap];0.91[YRI][hapmap];0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4321658	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4365753	0.95[CEU][hapmap];1.00[GIH][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4472162	0.82[CEU][hapmap];0.94[EUR][1000 genomes]
rs4472163	0.82[CEU][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs4495064	0.84[TSI][hapmap]
rs4560439	0.95[CEU][hapmap];0.91[GIH][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.97[EUR][1000 genomes]
rs4612	0.81[TSI][hapmap]
rs4619914	0.95[CEU][hapmap];0.97[EUR][1000 genomes]
rs6533951	0.81[TSI][hapmap]
rs6815367	0.81[EUR][1000 genomes]
rs6818230	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6825593	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6842686	0.84[TSI][hapmap]
rs6842723	0.84[TSI][hapmap]
rs6855458	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.97[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7672208	0.94[EUR][1000 genomes]
rs7677162	0.94[EUR][1000 genomes]
rs7694971	0.94[EUR][1000 genomes]
rs7699519	0.94[EUR][1000 genomes]
rs7699905	0.98[EUR][1000 genomes]
rs9992088	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][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	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6533940	ANXA3	cis	cerebellum	SCAN
rs6533940	LOC643424	cis	multi-tissue	Pritchard

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:79618800-79622000	Weak transcription	K562	blood

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