Variant report

Variant	rs701826
Chromosome Location	chr10:90417499-90417500
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10749594	0.84[ASN][1000 genomes]
rs10788608	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs10788610	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10887837	1.00[JPT][hapmap]
rs10887839	0.83[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs10887840	0.89[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.88[TSI][hapmap]
rs10887841	1.00[JPT][hapmap]
rs11202781	0.89[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.88[TSI][hapmap]
rs1409137	0.84[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap]
rs1555841	1.00[JPT][hapmap]
rs1769686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1934447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1980811	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2274312	1.00[JPT][hapmap]
rs2296545	1.00[JPT][hapmap]
rs2576168	0.83[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs2576178	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap]
rs2765446	0.89[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[TSI][hapmap]
rs2765452	0.84[CEU][hapmap];0.87[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.83[TSI][hapmap]
rs7476392	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs750507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs845133	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv430254	chr10:90265420-90500520	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1044680	chr10:90316066-90466092	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv540740	chr10:90316066-90466092	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv551839	chr10:90334835-90422136	Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv831941	chr10:90410488-90587332	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs701826	LIPN	cis	cerebellum	SCAN
rs701826	KIF20B	cis	parietal	SCAN
rs701826	ANKRD22	cis	cerebellum	SCAN
rs701826	LIPJ	cis	parietal	SCAN

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90402800-90417600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr10:90409000-90417800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr10:90412800-90417600	Weak transcription	NHLF	lung
4	chr10:90412800-90419400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr10:90413000-90417600	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr10:90413000-90417600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr10:90413000-90417600	Weak transcription	NH-A	brain
8	chr10:90413200-90417600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr10:90415600-90423200	Weak transcription	Gastric	stomach
10	chr10:90417000-90418200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr10:90417000-90418200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr10:90417200-90418000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr10:90417200-90418200	Enhancers	HMEC	breast
14	chr10:90417200-90418200	Enhancers	NHEK	skin
15	chr10:90417200-90418600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr10:90417200-90418600	Enhancers	NHDF-Ad	bronchial
17	chr10:90417400-90417800	Enhancers	HSMM	muscle
18	chr10:90417400-90418600	Enhancers	Osteobl	bone

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