Variant report

Variant	rs13178242
Chromosome Location	chr5:106745522-106745523
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10085055	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11242636	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11956440	0.88[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13182976	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1975009	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28683545	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34366978	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34583348	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35021422	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3756544	0.88[CEU][hapmap];0.90[CHB][hapmap]
rs3776792	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3797510	0.88[CEU][hapmap];0.83[CHD][hapmap]
rs3797513	0.88[CEU][hapmap];0.86[CHD][hapmap]
rs3797516	0.88[CEU][hapmap];0.95[CHB][hapmap];0.80[ASN][1000 genomes]
rs3797517	0.88[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.91[MEX][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3797521	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3797527	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3822565	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3873122	0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3873123	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3901010	0.89[CHB][hapmap];0.91[JPT][hapmap]
rs58696640	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66505151	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6868410	0.88[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72785829	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7703776	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.98[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	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106732200-106753200	Weak transcription	Fetal Kidney	kidney
2	chr5:106738800-106761600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:106739000-106751200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:106739000-106754600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr5:106739000-106758200	Weak transcription	Left Ventricle	heart
6	chr5:106739600-106762600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr5:106740400-106749800	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:106741000-106758200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr5:106741200-106749600	Weak transcription	A549	lung
10	chr5:106741200-106751600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr5:106742000-106753800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr5:106743000-106746600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr5:106744200-106748000	Weak transcription	Fetal Heart	heart
14	chr5:106744400-106745600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:106744600-106745600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr5:106744800-106745600	Enhancers	Muscle Satellite Cultured Cells	--
17	chr5:106744800-106745600	Enhancers	Right Ventricle	heart
18	chr5:106744800-106745600	Enhancers	HMEC	breast
19	chr5:106744800-106745800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr5:106744800-106745800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr5:106745000-106745600	Enhancers	NHDF-Ad	bronchial
22	chr5:106745000-106746600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr5:106745000-106754000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr5:106745400-106745800	Enhancers	Osteobl	bone

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