Variant report

Variant	rs3740360
Chromosome Location	chr10:96025491-96025492
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10509671	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10509672	1.00[YRI][hapmap];0.88[AMR][1000 genomes]
rs10882435	0.83[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10882436	0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11187826	0.88[AMR][1000 genomes]
rs11187837	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11187840	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187842	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187845	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187847	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11187851	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11187852	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11187856	0.96[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11187863	0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187864	0.83[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187866	0.85[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187869	0.85[ASN][1000 genomes]
rs11187870	0.85[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11187877	0.96[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187882	0.96[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11187883	0.85[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187890	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187893	0.85[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11187894	0.84[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs11187895	0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187897	0.84[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11187899	0.86[ASN][1000 genomes]
rs11187900	0.86[ASN][1000 genomes]
rs11187906	0.84[AMR][1000 genomes]
rs11558740	0.86[ASN][1000 genomes]
rs12217597	0.85[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs12217792	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12220091	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12781451	0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs17109875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3740359	0.84[CHB][hapmap];0.89[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs3740365	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3781264	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3781266	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6583935	0.82[JPT][hapmap]
rs7096678	0.93[ASN][1000 genomes]
rs7096883	1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7100626	0.96[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7101207	0.88[AMR][1000 genomes]
rs752140	0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs753724	1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];1.00[AMR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95974200-96034000	Weak transcription	Colon Smooth Muscle	Colon
2	chr10:95985800-96033800	Weak transcription	Left Ventricle	heart
3	chr10:95994600-96045400	Weak transcription	Lung	lung
4	chr10:95995800-96051800	Weak transcription	Fetal Kidney	kidney
5	chr10:96004400-96034000	Weak transcription	Fetal Brain Male	brain
6	chr10:96005000-96031200	Weak transcription	Brain Germinal Matrix	brain
7	chr10:96006600-96030200	Weak transcription	Gastric	stomach
8	chr10:96006600-96030200	Weak transcription	Ovary	ovary
9	chr10:96006600-96033600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr10:96012600-96030600	Weak transcription	Stomach Mucosa	stomach
11	chr10:96012800-96030600	Weak transcription	Spleen	Spleen
12	chr10:96013200-96034000	Weak transcription	Adipose Nuclei	Adipose
13	chr10:96013600-96034000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr10:96014000-96030000	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr10:96014000-96034000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:96014400-96030800	Weak transcription	Placenta	Placenta
17	chr10:96015000-96070200	Weak transcription	Fetal Brain Female	brain
18	chr10:96016800-96032600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr10:96017000-96033600	Weak transcription	HSMMtube	muscle
20	chr10:96019000-96028000	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr10:96019000-96028600	Weak transcription	Colonic Mucosa	Colon
22	chr10:96019800-96027000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr10:96020200-96026000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr10:96020200-96026000	Weak transcription	A549	lung
25	chr10:96020200-96027000	Weak transcription	Stomach Smooth Muscle	stomach
26	chr10:96020200-96028200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr10:96020200-96028200	Weak transcription	Aorta	Aorta
28	chr10:96020200-96030200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr10:96020800-96039800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr10:96021400-96027600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr10:96022000-96025800	Strong transcription	Fetal Stomach	stomach
32	chr10:96022600-96025600	Weak transcription	Fetal Intestine Large	intestine
33	chr10:96022600-96026200	Weak transcription	Fetal Lung	lung
34	chr10:96023600-96038400	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr10:96023800-96026800	Enhancers	Pancreatic Islets	Pancreatic Islet
36	chr10:96024000-96026600	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr10:96024000-96030600	Strong transcription	Fetal Muscle Leg	muscle
38	chr10:96024000-96033800	Strong transcription	Fetal Muscle Trunk	muscle
39	chr10:96024200-96031200	Weak transcription	Small Intestine	intestine
40	chr10:96024200-96033600	Weak transcription	Fetal Heart	heart
41	chr10:96024800-96030200	Weak transcription	Fetal Intestine Small	intestine
42	chr10:96025000-96026000	Weak transcription	HepG2	liver
43	chr10:96025000-96026200	Weak transcription	Pancreas	Pancrea
44	chr10:96025400-96030400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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