Variant report

Variant	rs2339503
Chromosome Location	chr10:52241632-52241633
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10458673	0.80[ASN][1000 genomes]
rs10508927	0.92[JPT][hapmap];0.80[ASN][1000 genomes]
rs10508929	0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs10740684	0.87[ASN][1000 genomes]
rs10763382	0.92[JPT][hapmap];0.82[ASN][1000 genomes]
rs10763426	0.87[ASN][1000 genomes]
rs10763500	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10825859	0.81[ASN][1000 genomes]
rs10825861	0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs10825882	0.92[JPT][hapmap];0.85[ASN][1000 genomes]
rs10825904	0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs10825934	0.87[ASN][1000 genomes]
rs10825978	0.92[JPT][hapmap];0.88[ASN][1000 genomes]
rs10825995	0.93[JPT][hapmap];0.93[ASN][1000 genomes]
rs10825996	0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs10826013	0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs10826033	0.97[ASN][1000 genomes]
rs10826036	0.98[ASN][1000 genomes]
rs11005356	0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs11005418	0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs11005579	0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs11005614	0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs11005621	0.88[ASN][1000 genomes]
rs11005761	0.96[ASN][1000 genomes]
rs11005803	0.98[ASN][1000 genomes]
rs11005884	0.97[ASN][1000 genomes]
rs12217648	0.87[ASN][1000 genomes]
rs12219070	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1884572	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1916572	0.93[JPT][hapmap];0.87[ASN][1000 genomes]
rs2144863	0.94[ASN][1000 genomes]
rs2273402	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2339507	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs34122137	0.87[ASN][1000 genomes]
rs3739989	0.92[JPT][hapmap];0.80[ASN][1000 genomes]
rs4935165	0.97[ASN][1000 genomes]
rs4935711	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4935728	0.92[ASN][1000 genomes]
rs7079881	0.93[ASN][1000 genomes]
rs7086029	0.85[JPT][hapmap];0.87[ASN][1000 genomes]
rs7090807	1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7896315	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7920818	1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs7922802	0.86[JPT][hapmap]
rs910817	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs927047	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs927048	1.00[JPT][hapmap];0.94[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	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 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	chr10:52220000-52243600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr10:52229800-52242600	Weak transcription	Thymus	Thymus
3	chr10:52229800-52244000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr10:52229800-52252000	Weak transcription	Aorta	Aorta
5	chr10:52230600-52256400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr10:52231200-52242000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr10:52231200-52244600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr10:52231200-52257800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr10:52231800-52243000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr10:52232400-52242400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr10:52234000-52242200	Weak transcription	Psoas Muscle	Psoas
12	chr10:52234000-52243600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr10:52234000-52261600	Weak transcription	Pancreas	Pancrea
14	chr10:52234200-52246800	Weak transcription	Brain Anterior Caudate	brain
15	chr10:52235200-52243200	Weak transcription	Brain Hippocampus Middle	brain
16	chr10:52237000-52242200	Weak transcription	K562	blood
17	chr10:52237000-52243200	Weak transcription	Fetal Muscle Trunk	muscle
18	chr10:52237000-52250400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr10:52237200-52243200	Weak transcription	Primary B cells from peripheral blood	blood
20	chr10:52237400-52242200	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr10:52237800-52255000	Weak transcription	Liver	Liver
22	chr10:52237800-52261800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr10:52238800-52243400	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr10:52239200-52243600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr10:52240200-52244000	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr10:52240400-52241800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr10:52240400-52242000	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr10:52240600-52242400	Weak transcription	Primary hematopoietic stem cells	blood
29	chr10:52240600-52243000	Weak transcription	Primary B cells from cord blood	blood
30	chr10:52240800-52242000	Weak transcription	Lung	lung
31	chr10:52240800-52244400	Weak transcription	Primary T cells from cord blood	blood
32	chr10:52241000-52243800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr10:52241000-52244000	Weak transcription	Fetal Intestine Small	intestine
34	chr10:52241200-52242000	Weak transcription	Fetal Stomach	stomach
35	chr10:52241200-52243400	Weak transcription	Primary T cells fromperipheralblood	blood

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