Variant report

Variant	rs10490920
Chromosome Location	chr10:89685643-89685644
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1008435	0.87[EUR][1000 genomes]
rs1040316	0.88[CEU][hapmap];1.00[JPT][hapmap]
rs1040317	0.88[EUR][1000 genomes]
rs10509532	0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10788568	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10788569	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs10788573	0.88[EUR][1000 genomes]
rs10788574	0.86[EUR][1000 genomes]
rs10788575	0.86[EUR][1000 genomes]
rs10887758	0.87[CHB][hapmap];0.95[JPT][hapmap];0.92[YRI][hapmap]
rs10887759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10887760	0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10887763	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10887765	0.87[EUR][1000 genomes]
rs10887766	0.94[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10887767	0.94[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs10887770	0.87[EUR][1000 genomes]
rs10887771	0.88[EUR][1000 genomes]
rs10887772	0.87[EUR][1000 genomes]
rs10887773	0.84[EUR][1000 genomes]
rs10887775	0.85[EUR][1000 genomes]
rs11202585	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs11202586	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs11202590	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11202594	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11202614	0.94[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs11202627	0.86[EUR][1000 genomes]
rs12569872	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12569998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12572106	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12769346	0.85[EUR][1000 genomes]
rs1903860	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2142136	0.88[EUR][1000 genomes]
rs2299941	0.93[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes]
rs2311339	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35730333	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs36062478	0.88[EUR][1000 genomes]
rs4573602	0.87[EUR][1000 genomes]
rs926091	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[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	esv1793518	chr10:89625582-89733420	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	esv1798260	chr10:89625582-89733420	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1044043	chr10:89678935-89701069	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2530664	chr10:89685139-89686634	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89647000-89711200	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:89663600-89686400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:89663600-89687400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr10:89663800-89725400	Weak transcription	Colonic Mucosa	Colon
5	chr10:89666000-89712400	Weak transcription	Fetal Brain Male	brain
6	chr10:89673600-89726000	Weak transcription	Brain Substantia Nigra	brain
7	chr10:89674200-89695200	Weak transcription	Brain Cingulate Gyrus	brain
8	chr10:89674200-89711000	Weak transcription	HepG2	liver
9	chr10:89674600-89686400	Weak transcription	HSMMtube	muscle
10	chr10:89674600-89687000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr10:89674600-89689800	Weak transcription	Fetal Lung	lung
12	chr10:89674600-89695600	Weak transcription	Fetal Muscle Trunk	muscle
13	chr10:89674800-89724400	Weak transcription	Fetal Brain Female	brain
14	chr10:89675400-89686400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr10:89675400-89726000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr10:89675600-89686200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr10:89675600-89687200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr10:89675600-89705000	Weak transcription	Fetal Stomach	stomach
19	chr10:89675600-89705200	Weak transcription	Esophagus	oesophagus
20	chr10:89676200-89686400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
21	chr10:89676600-89686200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr10:89676600-89686400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr10:89676600-89686400	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr10:89676600-89686400	Weak transcription	HMEC	breast
25	chr10:89676600-89686600	Weak transcription	Small Intestine	intestine
26	chr10:89676600-89695400	Weak transcription	Brain Anterior Caudate	brain
27	chr10:89676800-89686400	Weak transcription	NHEK	skin
28	chr10:89676800-89691000	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr10:89677000-89686400	Weak transcription	NHLF	lung
30	chr10:89677200-89688200	Weak transcription	A549	lung
31	chr10:89678000-89694200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr10:89678600-89686400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr10:89678800-89687000	Weak transcription	Liver	Liver
34	chr10:89679800-89691600	Weak transcription	Brain Hippocampus Middle	brain
35	chr10:89681000-89687200	Enhancers	Primary T helper cells PMA-I stimulated	--
36	chr10:89681200-89686600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr10:89681400-89686400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr10:89681600-89689400	Enhancers	Primary T helper naive cells from peripheral blood	blood
39	chr10:89681800-89686200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr10:89681800-89686400	Weak transcription	Aorta	Aorta
41	chr10:89681800-89691200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr10:89682000-89686200	Weak transcription	Brain Angular Gyrus	brain
43	chr10:89682000-89686400	Weak transcription	Right Atrium	heart
44	chr10:89682000-89686800	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr10:89682000-89687200	Weak transcription	Ovary	ovary
46	chr10:89682000-89705200	Weak transcription	Fetal Intestine Small	intestine
47	chr10:89682000-89705200	Weak transcription	Left Ventricle	heart
48	chr10:89682000-89705600	Weak transcription	Lung	lung
49	chr10:89682200-89687400	Genic enhancers	Primary B cells from cord blood	blood
50	chr10:89682400-89686200	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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