Variant report

Variant	rs1614600
Chromosome Location	chr6:64057547-64057548
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs1741797	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019831	chr6:63279677-64230736	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538270	chr6:63682752-64147241	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1031548	chr6:64026862-64102045	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1030651	chr6:64028392-64102045	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1614600	LGSN	cis	Whole Blood	GTEx

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64040400-64071200	Weak transcription	Placenta	Placenta
2	chr6:64051400-64058000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:64056000-64058200	Enhancers	HepG2	liver
4	chr6:64056600-64059800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:64056800-64059600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:64057000-64057600	Enhancers	Fetal Intestine Small	intestine
7	chr6:64057000-64058200	Active TSS	Fetal Intestine Large	intestine
8	chr6:64057000-64058400	Enhancers	NHLF	lung
9	chr6:64057000-64059200	Enhancers	NHEK	skin
10	chr6:64057000-64059600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:64057000-64059800	Enhancers	Muscle Satellite Cultured Cells	--
12	chr6:64057200-64057600	Enhancers	Pancreatic Islets	Pancreatic Islet
13	chr6:64057200-64058400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:64057200-64059000	Enhancers	HMEC	breast
15	chr6:64057200-64059800	Enhancers	NHDF-Ad	bronchial
16	chr6:64057200-64060000	Enhancers	HUVEC	blood vessel
17	chr6:64057200-64062200	Enhancers	Hela-S3	cervix
18	chr6:64057400-64058000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr6:64057400-64058200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:64057400-64058200	Flanking Active TSS	A549	lung
21	chr6:64057400-64058200	Enhancers	NH-A	brain
22	chr6:64057400-64058200	Enhancers	Osteobl	bone
23	chr6:64057400-64059200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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