Variant report

Variant	rs7561009
Chromosome Location	chr2:100293824-100293825
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10191816	0.82[ASN][1000 genomes]
rs10199818	0.84[ASN][1000 genomes]
rs11123790	0.83[EUR][1000 genomes]
rs11123793	0.84[ASN][1000 genomes]
rs11123794	0.82[ASN][1000 genomes]
rs11123795	0.82[ASN][1000 genomes]
rs11682978	0.82[ASN][1000 genomes]
rs11690403	0.82[ASN][1000 genomes]
rs11888741	0.84[ASN][1000 genomes]
rs12712054	0.83[EUR][1000 genomes]
rs12712059	0.82[ASN][1000 genomes]
rs13010551	0.84[ASN][1000 genomes]
rs13030932	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13407928	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13428668	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1357719	0.82[EUR][1000 genomes]
rs1404175	0.82[ASN][1000 genomes]
rs1404176	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1404177	0.82[ASN][1000 genomes]
rs1464757	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1996984	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2030691	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2030692	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2030693	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2049400	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs2177541	0.82[EUR][1000 genomes]
rs2177542	0.80[EUR][1000 genomes]
rs2309690	0.84[ASN][1000 genomes]
rs2309729	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2871316	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34116173	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34369751	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3863005	0.82[ASN][1000 genomes]
rs3863006	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3915083	0.82[ASN][1000 genomes]
rs4332968	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4850910	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4851220	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4851221	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4851225	0.84[ASN][1000 genomes]
rs4851226	0.84[ASN][1000 genomes]
rs4851228	0.82[ASN][1000 genomes]
rs4851229	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4851230	0.82[ASN][1000 genomes]
rs62150081	0.91[AMR][1000 genomes]
rs6542884	0.80[EUR][1000 genomes]
rs6542890	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6738724	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6739478	0.82[ASN][1000 genomes]
rs6739601	0.84[ASN][1000 genomes]
rs6741990	0.82[ASN][1000 genomes]
rs6744510	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6745568	0.83[EUR][1000 genomes]
rs6746146	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6748557	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6756009	0.82[ASN][1000 genomes]
rs6757262	0.82[ASN][1000 genomes]
rs6758027	0.82[ASN][1000 genomes]
rs7559975	0.82[ASN][1000 genomes]
rs7579222	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7582469	0.82[ASN][1000 genomes]
rs7584365	0.81[ASN][1000 genomes]
rs868665	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9284724	0.82[EUR][1000 genomes]
rs9308826	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9308827	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9678859	0.83[EUR][1000 genomes];0.87[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	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv962113	chr2:100022168-100317461	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1003343	chr2:100241560-100848900	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv535843	chr2:100241560-100848900	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100253200-100308800	Weak transcription	Gastric	stomach
2	chr2:100257600-100308600	Weak transcription	Thymus	Thymus
3	chr2:100264000-100328600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr2:100274200-100297400	Weak transcription	Liver	Liver
5	chr2:100276400-100302000	Weak transcription	Left Ventricle	heart
6	chr2:100276600-100295800	Weak transcription	Right Atrium	heart
7	chr2:100279400-100295000	Weak transcription	Fetal Brain Male	brain
8	chr2:100282600-100308600	Weak transcription	Ovary	ovary
9	chr2:100286000-100294000	Weak transcription	Fetal Brain Female	brain
10	chr2:100286000-100297800	Weak transcription	Primary hematopoietic stem cells	blood
11	chr2:100286000-100301000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr2:100286000-100305600	Weak transcription	Fetal Thymus	thymus
13	chr2:100286600-100336800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr2:100287000-100298200	Weak transcription	Dnd41	blood
15	chr2:100288400-100296800	Weak transcription	NH-A	brain
16	chr2:100288800-100302200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr2:100289000-100300400	Weak transcription	Fetal Muscle Leg	muscle
18	chr2:100289400-100295600	Weak transcription	Fetal Heart	heart
19	chr2:100289800-100296400	Weak transcription	Fetal Lung	lung
20	chr2:100290200-100305000	Strong transcription	Primary B cells from cord blood	blood
21	chr2:100290400-100298800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr2:100290600-100304800	Weak transcription	Fetal Kidney	kidney
23	chr2:100291200-100310800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr2:100291400-100295400	Weak transcription	Primary T cells from cord blood	blood
25	chr2:100291600-100307800	Strong transcription	Primary B cells from peripheral blood	blood
26	chr2:100292000-100295800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr2:100292000-100295800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr2:100293000-100294000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr2:100293200-100294200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:100293400-100295400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr2:100293800-100294200	Active TSS	Brain Hippocampus Middle	brain
32	chr2:100293800-100294200	Enhancers	Brain Substantia Nigra	brain
33	chr2:100293800-100294600	Enhancers	H9 Cell Line	embryonic stem cell
34	chr2:100293800-100294600	Enhancers	Brain Anterior Caudate	brain
35	chr2:100293800-100294600	Enhancers	Brain Inferior Temporal Lobe	brain

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