Variant report

Variant	rs13406671
Chromosome Location	chr2:190201858-190201859
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10174225	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10177513	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11693810	0.80[EUR][1000 genomes]
rs1464136	0.82[EUR][1000 genomes]
rs1519182	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1519185	0.83[EUR][1000 genomes]
rs1520862	0.80[EUR][1000 genomes]
rs2680629	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2683013	0.82[EUR][1000 genomes]
rs2683014	0.83[EUR][1000 genomes]
rs2683015	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2683016	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55726777	0.85[EUR][1000 genomes]
rs56381644	0.84[ASN][1000 genomes]
rs62182067	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7577872	0.82[EUR][1000 genomes]
rs9808245	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190193800-190202800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr2:190196400-190204600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr2:190200600-190203200	Enhancers	Muscle Satellite Cultured Cells	--
4	chr2:190201000-190202800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr2:190201000-190203400	Enhancers	NHDF-Ad	bronchial
6	chr2:190201000-190203800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:190201200-190202000	Enhancers	A549	lung
8	chr2:190201200-190202800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr2:190201400-190202800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr2:190201400-190203200	Enhancers	Colon Smooth Muscle	Colon
11	chr2:190201600-190202600	Weak transcription	Osteobl	bone
12	chr2:190201600-190202800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr2:190201600-190202800	Weak transcription	NHLF	lung
14	chr2:190201600-190203200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr2:190201600-190203400	Enhancers	Rectal Smooth Muscle	rectum

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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