Variant report

Variant	rs12806040
Chromosome Location	chr11:16881387-16881388
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11024083	1.00[JPT][hapmap]
rs11824348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs12418493	1.00[JPT][hapmap]
rs12708338	1.00[JPT][hapmap]
rs12785711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs12786886	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12787236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12793275	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12795133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12802357	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12805659	1.00[AMR][1000 genomes]
rs34441025	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34670733	1.00[AMR][1000 genomes]
rs34760218	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35364446	1.00[AMR][1000 genomes]
rs35449646	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35515929	1.00[AMR][1000 genomes]
rs35677666	1.00[EUR][1000 genomes]
rs35873274	1.00[AMR][1000 genomes]
rs6486322	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6486325	1.00[JPT][hapmap]
rs7123174	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs71484734	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs71484736	1.00[AMR][1000 genomes]
rs71484744	1.00[AMR][1000 genomes]
rs7394448	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7394466	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7394865	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7926072	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7933299	1.00[JPT][hapmap]
rs7943517	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7944146	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7947201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16853400-16883800	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr11:16863400-16882000	Weak transcription	Stomach Mucosa	stomach
3	chr11:16863800-16884800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr11:16863800-16892600	Weak transcription	Fetal Kidney	kidney
5	chr11:16864200-16882000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr11:16867800-16885000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr11:16872000-16895800	Weak transcription	Aorta	Aorta
8	chr11:16872200-16882200	Weak transcription	Brain Angular Gyrus	brain
9	chr11:16872200-16884400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr11:16872600-16889600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr11:16872800-16883800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr11:16874400-16881400	Strong transcription	Fetal Intestine Small	intestine
13	chr11:16876000-16883800	Weak transcription	Fetal Brain Female	brain
14	chr11:16876200-16888400	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr11:16876400-16883600	Weak transcription	Spleen	Spleen
16	chr11:16876600-16884000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr11:16876600-16889800	Weak transcription	Adipose Nuclei	Adipose
18	chr11:16876600-16890800	Weak transcription	Colonic Mucosa	Colon
19	chr11:16876800-16881600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr11:16876800-16898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr11:16877800-16883800	Weak transcription	Brain Germinal Matrix	brain
22	chr11:16877800-16890000	Weak transcription	Lung	lung
23	chr11:16877800-16892200	Weak transcription	Fetal Stomach	stomach
24	chr11:16877800-16899600	Weak transcription	Stomach Smooth Muscle	stomach
25	chr11:16878000-16889400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr11:16878200-16881600	Weak transcription	Brain Hippocampus Middle	brain
27	chr11:16878200-16883800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr11:16878400-16881400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr11:16878400-16883400	Weak transcription	Brain Substantia Nigra	brain
30	chr11:16878600-16882200	Weak transcription	Brain Anterior Caudate	brain
31	chr11:16878800-16890000	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr11:16879000-16881400	Weak transcription	Gastric	stomach
33	chr11:16879000-16881800	Weak transcription	Psoas Muscle	Psoas
34	chr11:16879000-16883600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr11:16879000-16884200	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr11:16879000-16887600	Weak transcription	Duodenum Mucosa	Duodenum
37	chr11:16879200-16881400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr11:16879200-16881600	Weak transcription	Fetal Intestine Large	intestine
39	chr11:16879200-16882000	Weak transcription	Esophagus	oesophagus
40	chr11:16879200-16882000	Weak transcription	Ovary	ovary
41	chr11:16879200-16882000	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr11:16879200-16883000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr11:16879200-16884000	Weak transcription	Liver	Liver
44	chr11:16879400-16881400	Enhancers	Fetal Heart	heart
45	chr11:16879400-16885000	Enhancers	K562	blood
46	chr11:16880400-16881400	Enhancers	Right Atrium	heart
47	chr11:16880400-16881800	Enhancers	Placenta	Placenta
48	chr11:16880400-16882400	Enhancers	Left Ventricle	heart
49	chr11:16880400-16883800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr11:16880400-16885200	Enhancers	Breast Myoepithelial Primary Cells	Breast

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