Variant report

Variant	rs12713956
Chromosome Location	chr2:21241505-21241506
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12714102	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2854725	0.87[CEU][hapmap];0.89[TSI][hapmap]
rs3791981	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs550619	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs570877	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[TSI][hapmap];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs579826	0.87[CEU][hapmap];0.82[CHB][hapmap];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant related diseases (count:1)

Disease	PMID	Source
LDL cholesterol	23726366	GWAS catalog

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12713956	APOB	cis	Skin Sun Exposed Lower leg	GTEx
rs12713956	CD99	trans	brain	seeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:21223200-21245600	Strong transcription	Liver	Liver
2	chr2:21234800-21262200	Weak transcription	Ovary	ovary
3	chr2:21235000-21246600	Strong transcription	Duodenum Mucosa	Duodenum
4	chr2:21235000-21261800	Strong transcription	Fetal Intestine Large	intestine
5	chr2:21238400-21242000	Weak transcription	Stomach Smooth Muscle	stomach
6	chr2:21238400-21246200	Strong transcription	Fetal Intestine Small	intestine
7	chr2:21240000-21246600	Genic enhancers	HepG2	liver
8	chr2:21240600-21242800	Strong transcription	Left Ventricle	heart
9	chr2:21240600-21250600	Weak transcription	Adipose Nuclei	Adipose
10	chr2:21241400-21243600	Strong transcription	Aorta	Aorta

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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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