Variant report

Variant	rs9872642
Chromosome Location	chr3:158078167-158078168
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 91 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10049160	1.00[EUR][1000 genomes]
rs12330339	1.00[EUR][1000 genomes]
rs13317509	0.98[AFR][1000 genomes]
rs13321065	1.00[EUR][1000 genomes]
rs13322986	1.00[EUR][1000 genomes]
rs13323462	1.00[EUR][1000 genomes]
rs16829007	1.00[EUR][1000 genomes]
rs28396261	1.00[EUR][1000 genomes]
rs28402668	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28428827	1.00[EUR][1000 genomes]
rs28506940	1.00[EUR][1000 genomes]
rs28608522	1.00[EUR][1000 genomes]
rs28646251	1.00[EUR][1000 genomes]
rs28680366	1.00[EUR][1000 genomes]
rs28720767	1.00[EUR][1000 genomes]
rs57550995	1.00[AMR][1000 genomes]
rs6441190	0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6441192	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6762087	1.00[EUR][1000 genomes]
rs6762923	1.00[EUR][1000 genomes]
rs6765159	1.00[EUR][1000 genomes]
rs6767072	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6775960	1.00[EUR][1000 genomes]
rs6776674	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6784612	1.00[EUR][1000 genomes]
rs6784707	0.83[YRI][hapmap];1.00[EUR][1000 genomes]
rs6786770	1.00[EUR][1000 genomes]
rs6786849	1.00[AMR][1000 genomes]
rs6787212	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6789607	1.00[EUR][1000 genomes]
rs6790259	0.91[AFR][1000 genomes]
rs6798405	1.00[EUR][1000 genomes]
rs6801076	1.00[EUR][1000 genomes]
rs6804113	1.00[EUR][1000 genomes]
rs6807211	1.00[AMR][1000 genomes]
rs6809280	1.00[EUR][1000 genomes]
rs6810324	1.00[EUR][1000 genomes]
rs73013336	1.00[EUR][1000 genomes]
rs73017444	1.00[AMR][1000 genomes]
rs73017454	1.00[AMR][1000 genomes]
rs73017464	1.00[AMR][1000 genomes]
rs73017470	1.00[AMR][1000 genomes]
rs73017472	1.00[EUR][1000 genomes]
rs73027918	1.00[EUR][1000 genomes]
rs73028000	1.00[EUR][1000 genomes]
rs73028775	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73028779	1.00[EUR][1000 genomes]
rs73028802	1.00[AMR][1000 genomes]
rs73029897	1.00[EUR][1000 genomes]
rs73029899	1.00[EUR][1000 genomes]
rs73030514	1.00[EUR][1000 genomes]
rs73031618	1.00[EUR][1000 genomes]
rs73031643	1.00[EUR][1000 genomes]
rs73031646	1.00[EUR][1000 genomes]
rs7613737	1.00[EUR][1000 genomes]
rs7618252	1.00[EUR][1000 genomes]
rs7621282	1.00[EUR][1000 genomes]
rs7622013	1.00[EUR][1000 genomes]
rs7627082	0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7633366	1.00[EUR][1000 genomes]
rs7635356	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7638647	1.00[EUR][1000 genomes]
rs827133	0.83[AFR][1000 genomes]
rs9817119	1.00[EUR][1000 genomes]
rs9821945	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9824822	1.00[EUR][1000 genomes]
rs9829790	0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9838425	1.00[EUR][1000 genomes]
rs9841653	1.00[EUR][1000 genomes]
rs9843252	0.93[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9846272	1.00[EUR][1000 genomes]
rs9852177	1.00[EUR][1000 genomes]
rs9852974	1.00[EUR][1000 genomes]
rs9858864	1.00[EUR][1000 genomes]
rs9861869	1.00[EUR][1000 genomes]
rs9863618	1.00[EUR][1000 genomes]
rs9868975	1.00[EUR][1000 genomes]
rs9869501	1.00[EUR][1000 genomes]
rs9870885	1.00[EUR][1000 genomes]
rs9873074	1.00[EUR][1000 genomes]
rs9877427	1.00[EUR][1000 genomes]
rs9877843	1.00[EUR][1000 genomes]
rs9877873	1.00[EUR][1000 genomes]
rs9878828	1.00[EUR][1000 genomes]
rs9882507	1.00[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	nsv1013391	chr3:157505943-158115553	Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv536775	chr3:157505943-158115553	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1002378	chr3:157715428-158673414	Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv877689	chr3:157858930-158133307	Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv916910	chr3:157926799-158183372	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1014381	chr3:158070451-158350118	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:158048200-158079400	Weak transcription	Right Ventricle	heart
2	chr3:158055200-158086000	Weak transcription	Left Ventricle	heart
3	chr3:158057800-158079600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:158073600-158079400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:158075800-158078400	Weak transcription	Esophagus	oesophagus
6	chr3:158076200-158078600	ZNF genes & repeats	Dnd41	blood
7	chr3:158076200-158087000	Weak transcription	Aorta	Aorta
8	chr3:158076400-158078600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:158076400-158079800	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:158076600-158078800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr3:158076600-158079000	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr3:158076800-158078800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr3:158076800-158079200	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr3:158077000-158079200	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr3:158077200-158078200	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
16	chr3:158077200-158078200	ZNF genes & repeats	Primary B cells from cord blood	blood
17	chr3:158077200-158078400	ZNF genes & repeats	Primary B cells from peripheral blood	blood
18	chr3:158077200-158078400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr3:158077200-158078400	ZNF genes & repeats	Lung	lung
20	chr3:158077200-158078400	ZNF genes & repeats	Ovary	ovary
21	chr3:158077200-158078400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
22	chr3:158077200-158078600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:158077200-158078600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
24	chr3:158077200-158078600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:158077200-158078600	ZNF genes & repeats	Fetal Intestine Small	intestine
26	chr3:158077200-158078800	ZNF genes & repeats	Fetal Muscle Trunk	muscle
27	chr3:158077200-158079400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr3:158077400-158078200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:158077400-158078200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
30	chr3:158077400-158078200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr3:158077400-158078400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
32	chr3:158077400-158078400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:158077400-158078400	Strong transcription	Adipose Nuclei	Adipose
34	chr3:158077400-158078600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:158077400-158078600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr3:158077400-158078600	ZNF genes & repeats	Duodenum Mucosa	Duodenum
37	chr3:158077400-158078800	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr3:158077400-158078800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr3:158077600-158079200	ZNF genes & repeats	Spleen	Spleen
40	chr3:158077800-158078400	Strong transcription	Gastric	stomach
41	chr3:158077800-158078800	Strong transcription	Stomach Smooth Muscle	stomach
42	chr3:158077800-158079000	ZNF genes & repeats	Fetal Stomach	stomach
43	chr3:158077800-158079400	Weak transcription	Primary T cells from cord blood	blood
44	chr3:158078000-158078200	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
45	chr3:158078000-158079600	Weak transcription	Primary T cells fromperipheralblood	blood

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