Variant report

Variant	rs1534161
Chromosome Location	chr3:143348264-143348265
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11707194	0.83[ASW][hapmap]
rs11712583	0.96[CEU][hapmap];0.84[YRI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13089318	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1978913	0.96[CEU][hapmap];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2030817	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4425252	1.00[CEU][hapmap];0.87[JPT][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6779887	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6779888	0.94[ASW][hapmap];0.96[CEU][hapmap];0.96[GIH][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap];0.84[YRI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7632272	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9809563	0.92[AFR][1000 genomes]
rs9811274	0.87[ASW][hapmap];0.97[LWK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs9811842	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1534161	CPB1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143324400-143353800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr3:143328200-143376200	Weak transcription	Ovary	ovary
3	chr3:143337400-143354200	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr3:143339200-143355200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
5	chr3:143345600-143349800	Weak transcription	Brain Angular Gyrus	brain
6	chr3:143346000-143348400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:143346400-143363200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:143346600-143352800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:143346600-143355600	Weak transcription	Primary T cells from cord blood	blood
10	chr3:143348000-143348600	Enhancers	NH-A	brain
11	chr3:143348000-143349400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr3:143348200-143355400	Weak transcription	Monocytes-CD14+_RO01746	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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