Variant report

Variant	rs1545527
Chromosome Location	chr11:59254395-59254396
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:59249101..59250760-chr11:59252215..59254490,2	K562	blood:
2	chr11:59252180..59254795-chr11:59256449..59259540,4	K562	blood:
3	chr11:59252907..59254795-chr11:59256449..59259099,2	K562	blood:

Variant related genes	Relation type
ENSG00000204989	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10792245	0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10896979	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10896980	0.89[CHB][hapmap];0.88[JPT][hapmap]
rs10896981	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10896982	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10896983	0.81[CEU][hapmap];0.85[EUR][1000 genomes]
rs11229973	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11229974	0.95[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11229975	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11229976	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11229977	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11229978	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11229983	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11600218	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11604744	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12278052	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12574739	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12575723	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12792238	0.94[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12801464	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12804049	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12805562	0.89[EUR][1000 genomes]
rs1453531	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17501251	0.81[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs1964502	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35271086	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61901644	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7116107	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7116484	0.82[TSI][hapmap]
rs7120079	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7929779	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046084	chr11:59034871-59314519	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	esv3400070	chr11:59245677-59259456	Weak transcription Active TSS Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1545527	MS4A6A	cis	cerebellum	SCAN

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

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