Variant report

Variant	rs17562446
Chromosome Location	chr11:106482769-106482770
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12418838	1.00[ASN][1000 genomes]
rs12419060	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12421832	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12805720	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1938614	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35704768	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4754162	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72981962	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72981969	1.00[ASN][1000 genomes]
rs72981984	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72981986	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72981991	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72981994	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72983825	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7937031	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048381	chr11:105945117-106561574	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv1038836	chr11:106459674-106514773	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv1054602	chr11:106460454-106514773	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv1052457	chr11:106477599-106507197	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17562446	GSTM1	trans	lymphoblastoid	seeQTL
rs17562446	ACAT1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:106482400-106483800	Enhancers	Placenta Amnion	Placenta Amnion

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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