Variant report

Variant	rs1919840
Chromosome Location	chr2:125009858-125009859
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10173293	0.94[EUR][1000 genomes]
rs10197517	1.00[CEU][hapmap];0.80[GIH][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap]
rs10496632	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12711674	1.00[CEU][hapmap];0.80[GIH][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs12711676	1.00[CEU][hapmap];0.80[GIH][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs13391053	1.00[CEU][hapmap]
rs13395031	0.93[EUR][1000 genomes]
rs13403332	1.00[CEU][hapmap]
rs2901199	0.94[EUR][1000 genomes]
rs34213745	0.94[EUR][1000 genomes]
rs4144192	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56201719	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62170849	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6541944	0.94[EUR][1000 genomes]
rs6707012	0.94[EUR][1000 genomes]
rs6719774	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs6729514	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7558880	1.00[CEU][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	nsv531408	chr2:124727329-125011247	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv874989	chr2:124892592-125176030	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1919840	CYP27C1	cis	cerebellum	SCAN
rs1919840	POLR2D	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:125008000-125011000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:125008000-125012000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:125008600-125010000	Enhancers	Gastric	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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