Variant report

Variant	rs11711403
Chromosome Location	chr3:134106768-134106769
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11718883	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1366065	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1366066	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2052831	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2400274	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2400275	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2400276	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2895675	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34910025	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7614371	0.85[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	esv3522171	chr3:133889405-134156571	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3522172	chr3:133889405-134156571	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs11711403	SLCO2A1	cis	parietal	SCAN
rs11711403	TMEM22	cis	parietal	SCAN
rs11711403	PRR23C	cis	cerebellum	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134098000-134107200	Weak transcription	Lung	lung
2	chr3:134098000-134111200	Weak transcription	Right Atrium	heart
3	chr3:134101200-134108000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:134101400-134107400	Weak transcription	Fetal Lung	lung
5	chr3:134101400-134111600	Weak transcription	Pancreas	Pancrea
6	chr3:134102000-134107800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr3:134102000-134111600	Weak transcription	Esophagus	oesophagus
8	chr3:134104200-134108000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:134104200-134108000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr3:134104800-134108000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:134106200-134108600	Enhancers	Fetal Muscle Leg	muscle
12	chr3:134106600-134108200	Enhancers	Fetal Muscle Trunk	muscle

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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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