Variant report

Variant	rs6049805
Chromosome Location	chr20:24578973-24578974
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1409371	0.80[CHD][hapmap]
rs1409372	0.94[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1883924	0.94[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs4815278	0.80[CHD][hapmap]
rs4815284	0.96[ASN][1000 genomes]
rs6036837	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs6036847	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6083558	0.80[CHD][hapmap]
rs6083562	1.00[ASW][hapmap];0.83[CEU][hapmap];0.80[CHD][hapmap];0.85[MEX][hapmap];0.88[EUR][1000 genomes]
rs6138330	0.80[CHD][hapmap]
rs761437	0.89[CHB][hapmap];0.95[CHD][hapmap]

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	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	esv3332519	chr20:24535099-24815615	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6049805	CST5	cis	parietal	SCAN
rs6049805	TMEM90B	cis	parietal	SCAN
rs6049805	C20orf3	cis	cerebellum	SCAN
rs6049805	CST3	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24571400-24584800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr20:24574600-24580200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr20:24577600-24580000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr20:24578800-24579600	Enhancers	Primary T cells from cord blood	blood

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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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