Variant report

Variant	rs666126
Chromosome Location	chr2:21282435-21282436
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11127270	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11676704	1.00[YRI][hapmap]
rs12468735	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1713223	0.89[CEU][hapmap]
rs312947	0.82[AFR][1000 genomes]
rs312956	0.89[ASW][hapmap];0.82[CHB][hapmap];0.81[CHD][hapmap];0.81[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap]
rs312957	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs312959	0.83[CHB][hapmap];0.86[JPT][hapmap]
rs384302	1.00[YRI][hapmap]
rs385777	1.00[YRI][hapmap]
rs563476	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs565202	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs571468	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs588245	0.81[CEU][hapmap]
rs594677	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs634292	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs645456	0.91[AFR][1000 genomes]
rs664894	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs675430	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[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	nsv873728	chr2:21250914-21460786	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs666126	MSGN1	cis	cerebellum	SCAN
rs666126	ATAD2B	cis	cerebellum	SCAN
rs666126	APOB	cis	Adipose Subcutaneous	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:21282400-21282800	Weak transcription	HepG2	liver

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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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