Variant report

Variant	rs11887935
Chromosome Location	chr2:100127570-100127571
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:17)

rs_ID	r²[population]
rs10496336	0.81[AMR][1000 genomes]
rs11885942	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11896520	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12466114	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1823569	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2309618	0.81[AMR][1000 genomes]
rs28369945	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3087403	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3792143	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3792150	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4851207	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4851210	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs61436115	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62155807	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6714650	0.80[AMR][1000 genomes]
rs6748200	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs737094	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[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	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv962113	chr2:100022168-100317461	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11887935	LYG1	cis	Skin Sun Exposed Lower leg	GTEx
rs11887935	TSGA10	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100124600-100128000	Weak transcription	Colon Smooth Muscle	Colon
2	chr2:100124600-100128600	Weak transcription	Fetal Lung	lung
3	chr2:100124800-100128400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:100127200-100127800	Enhancers	Stomach Smooth Muscle	stomach
5	chr2:100127400-100127800	Weak transcription	Fetal Stomach	stomach

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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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