Variant report

Variant	rs3740359
Chromosome Location	chr10:96100119-96100120
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10509671	0.85[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs10509672	0.84[EUR][1000 genomes]
rs10882435	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10882436	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11187837	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11187840	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11187842	0.85[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11187845	0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11187847	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11187851	0.84[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs11187852	0.85[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11187856	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11187863	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11187864	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11187866	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11187869	0.97[ASN][1000 genomes]
rs11187870	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11187877	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187882	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11187883	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187890	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187893	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11187894	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs11187895	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187897	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187899	0.99[ASN][1000 genomes]
rs11187900	0.99[ASN][1000 genomes]
rs11558740	0.99[ASN][1000 genomes]
rs12217597	1.00[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12217792	0.85[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12220091	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12781451	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17109875	0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs3740360	0.84[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3740365	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3781264	0.85[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3781266	0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6583935	0.82[JPT][hapmap]
rs7096678	0.89[ASN][1000 genomes]
rs7096883	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7100626	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7101207	0.81[EUR][1000 genomes]
rs752140	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs753724	0.85[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2761616	chr10:95966768-96303701	Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv831946	chr10:96055190-96226438	Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	esv1819509	chr10:96064300-96361776	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96031800-96121000	Weak transcription	Stomach Mucosa	stomach
2	chr10:96043600-96121000	Weak transcription	Psoas Muscle	Psoas
3	chr10:96075200-96112200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:96077600-96100200	Strong transcription	Rectal Mucosa Donor 31	rectum
5	chr10:96078200-96121600	Weak transcription	Fetal Brain Male	brain
6	chr10:96080400-96100200	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr10:96080400-96105200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr10:96080400-96121000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr10:96080600-96101800	Weak transcription	Thymus	Thymus
10	chr10:96080800-96102600	Strong transcription	Primary B cells from peripheral blood	blood
11	chr10:96081000-96105600	Strong transcription	Duodenum Mucosa	Duodenum
12	chr10:96081000-96118200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr10:96081200-96118400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
14	chr10:96081600-96100400	Strong transcription	Fetal Intestine Large	intestine
15	chr10:96081600-96117400	Strong transcription	NH-A	brain
16	chr10:96081600-96121000	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr10:96081600-96121000	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr10:96081800-96100400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr10:96081800-96117400	Strong transcription	HSMM	muscle
20	chr10:96081800-96121000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:96081800-96121000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr10:96082000-96118400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr10:96082200-96113000	Weak transcription	Esophagus	oesophagus
24	chr10:96082400-96121000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
25	chr10:96082600-96109600	Weak transcription	Spleen	Spleen
26	chr10:96083000-96119800	Strong transcription	Primary T helper cells PMA-I stimulated	--
27	chr10:96083200-96118800	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr10:96084400-96118200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr10:96085000-96121000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr10:96085000-96122200	Weak transcription	Gastric	stomach
31	chr10:96085400-96109000	Weak transcription	Ovary	ovary
32	chr10:96086200-96121200	Strong transcription	HUES48 Cell Line	embryonic stem cell
33	chr10:96086800-96103400	Strong transcription	GM12878-XiMat	blood
34	chr10:96086800-96105400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr10:96087200-96100400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr10:96087600-96118600	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr10:96087600-96121200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr10:96088000-96118000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:96088200-96121800	Weak transcription	Aorta	Aorta
40	chr10:96088800-96108000	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr10:96089000-96106600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr10:96089000-96120600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr10:96089200-96100200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr10:96089200-96101000	Strong transcription	H9 Cell Line	embryonic stem cell
45	chr10:96089200-96119800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr10:96089400-96105400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr10:96089600-96100600	Strong transcription	A549	lung
48	chr10:96089600-96121000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
49	chr10:96089800-96100200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr10:96089800-96100200	Strong transcription	Skeletal Muscle Female	skeletal muscle

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