Variant report

Variant	rs2088815
Chromosome Location	chr3:156996271-156996272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1027603	0.91[CEU][hapmap];0.88[CHB][hapmap];0.98[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10936076	0.82[EUR][1000 genomes]
rs10936085	0.82[CHB][hapmap]
rs12486304	0.92[CEU][hapmap]
rs12496879	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1403107	0.92[CEU][hapmap];0.88[YRI][hapmap];0.80[EUR][1000 genomes]
rs1500916	0.82[CHB][hapmap];0.84[TSI][hapmap]
rs1500920	0.94[CHB][hapmap]
rs1500927	0.92[CEU][hapmap];0.88[CHB][hapmap];0.95[YRI][hapmap]
rs1546261	0.85[ASW][hapmap];0.91[CEU][hapmap];0.88[CHB][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1568609	0.88[CHB][hapmap]
rs1568612	0.95[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2047649	0.82[CHB][hapmap]
rs2062607	0.80[EUR][1000 genomes]
rs2088810	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4680351	1.00[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4680359	0.82[CHB][hapmap]
rs6441121	0.88[CHB][hapmap]
rs6771109	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6776647	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6780399	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6801110	0.82[CHB][hapmap]
rs7614339	0.94[CEU][hapmap];0.93[CHB][hapmap];0.92[JPT][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7631556	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7636413	0.93[ASW][hapmap];0.92[CEU][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap]
rs7643340	0.92[CEU][hapmap];0.88[YRI][hapmap]
rs885094	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs924517	0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs9289980	0.82[ASN][1000 genomes]
rs9857875	0.88[CHB][hapmap]
rs9867618	0.88[CHB][hapmap]
rs988587	0.82[CHB][hapmap];0.83[TSI][hapmap]
rs988588	0.88[CHB][hapmap];0.81[TSI][hapmap]
rs9990136	0.88[CHB][hapmap];0.84[TSI][hapmap]

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	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156967200-157000000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:156967200-157000000	Weak transcription	NH-A	brain
3	chr3:156967200-157007800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:156979600-156997000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:156982400-156997000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:156984200-156998200	Weak transcription	HUVEC	blood vessel
7	chr3:156988000-157005800	Weak transcription	Pancreas	Pancrea
8	chr3:156989400-156999800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:156992000-156996800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
10	chr3:156992600-157000200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:156994000-157000000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr3:156994200-156997000	Weak transcription	Osteobl	bone
13	chr3:156994200-156997200	Weak transcription	NHDF-Ad	bronchial
14	chr3:156994200-156998800	Weak transcription	HSMM	muscle
15	chr3:156994400-156998000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:156994400-156998000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:156994400-156998000	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:156994600-156998600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:156995200-156996400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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