Variant report

Variant	rs2502812
Chromosome Location	chr1:161239143-161239144
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11265583	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12088460	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12094828	0.82[AMR][1000 genomes]
rs12409590	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2501867	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2501871	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2501875	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2502813	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34740003	0.87[EUR][1000 genomes]
rs4255401	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4582821	0.84[AMR][1000 genomes]
rs4636484	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4657002	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4657004	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4657005	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4657006	0.89[EUR][1000 genomes]
rs4657007	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4657008	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4657009	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4657013	0.85[AMR][1000 genomes]
rs6427583	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6427584	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6681182	0.86[EUR][1000 genomes]
rs6690484	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9427370	0.81[EUR][1000 genomes]
rs9651035	0.82[AMR][1000 genomes]
rs9651049	0.98[TSI][hapmap];0.85[AMR][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	nsv530077	chr1:160836448-161284904	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
2	nsv432986	chr1:161221133-161673682	Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2502812	OR10J3	cis	parietal	SCAN
rs2502812	FCRL1	cis	cerebellum	SCAN
rs2502812	OR6K3	cis	cerebellum	SCAN
rs2502812	LMNA	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:161237400-161242800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr1:161237400-161242800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr1:161237400-161250600	Weak transcription	Pancreas	Pancrea
4	chr1:161238000-161242600	Weak transcription	Fetal Stomach	stomach
5	chr1:161238200-161257600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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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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