Variant report

Variant	rs13079051
Chromosome Location	chr3:99493219-99493220
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs13060898	0.87[EUR][1000 genomes]
rs13073356	0.88[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs13074107	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs13077478	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13079056	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13079346	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13081855	1.00[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs13100689	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17778253	0.87[EUR][1000 genomes]
rs34259523	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs34265976	0.88[EUR][1000 genomes]
rs34267913	0.89[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs34510467	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34605311	0.88[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs34795953	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs34886851	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34971126	0.93[ASN][1000 genomes]
rs35170022	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs35431878	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35445146	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35468254	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35492383	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs35522745	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35640679	0.88[EUR][1000 genomes]
rs35742383	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35804387	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62281858	0.88[EUR][1000 genomes]
rs62281859	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs62283460	0.88[EUR][1000 genomes]
rs62283463	0.88[EUR][1000 genomes]
rs62283465	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs62283470	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs62283488	0.86[EUR][1000 genomes]
rs62283491	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs62283492	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs62283493	0.94[EUR][1000 genomes]
rs62283495	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs6788894	0.93[ASN][1000 genomes]
rs71313564	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7636514	0.88[AFR][1000 genomes];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877217	chr3:99418950-99496351	Enhancers Genic enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv508231	chr3:99442020-99498951	Genic enhancers Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
5	esv3463437	chr3:99491122-99495551	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription	n/a	n/a	inside rSNPs	n/a
6	esv3463438	chr3:99491122-99495551	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99462400-99495600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:99472400-99493400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr3:99484400-99493400	Weak transcription	Aorta	Aorta
4	chr3:99484400-99500400	Weak transcription	HSMMtube	muscle
5	chr3:99485200-99493400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr3:99488200-99493400	Weak transcription	HUVEC	blood vessel
7	chr3:99490000-99494000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr3:99492000-99517600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr3:99492200-99494200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr3:99493000-99493400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:99493000-99493400	Enhancers	NHEK	skin
12	chr3:99493000-99493800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:99493000-99493800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:99493000-99494200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:99493000-99494200	Enhancers	HMEC	breast
16	chr3:99493000-99496800	Enhancers	NHDF-Ad	bronchial
17	chr3:99493000-99497800	Genic enhancers	HSMM	muscle
18	chr3:99493200-99493600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:99493200-99493600	Enhancers	Adipose Nuclei	Adipose
20	chr3:99493200-99493800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr3:99493200-99494200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr3:99493200-99494200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr3:99493200-99494200	Enhancers	NH-A	brain
24	chr3:99493200-99494200	Enhancers	NHLF	lung
25	chr3:99493200-99495000	Genic enhancers	Muscle Satellite Cultured Cells	--
26	chr3:99493200-99499400	Genic enhancers	Osteobl	bone

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