Variant report

Variant	rs1053909
Chromosome Location	chr15:92715571-92715572
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10520704	0.93[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.89[MEX][hapmap];0.81[MKK][hapmap];0.89[TSI][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2108601	1.00[CHB][hapmap];0.88[CHD][hapmap];0.91[ASN][1000 genomes]
rs28698322	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7172018	0.93[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[JPT][hapmap];0.82[MEX][hapmap];0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7181257	0.80[JPT][hapmap]
rs748851	0.88[CHB][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9744294	0.83[TSI][hapmap]
rs9806493	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[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	nsv948621	chr15:92688981-93158095	Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1037878	chr15:92713130-92739827	Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1053909	SLCO3A1	cis	multi-tissue	Pritchard
rs1053909	POLG	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92687600-92719400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr15:92708000-92718400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
3	chr15:92708200-92719000	Weak transcription	Lung	lung
4	chr15:92708600-92716000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr15:92711600-92727200	Weak transcription	Left Ventricle	heart
6	chr15:92712400-92716400	Weak transcription	Fetal Heart	heart
7	chr15:92713000-92717400	Weak transcription	Primary mononuclear cells fromperipheralblood	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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