Variant report

Variant	rs407354
Chromosome Location	chr11:16886892-16886893
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:16885788..16888348-chr11:16890918..16893317,2	K562	blood:
2	chr11:16885665..16888585-chr11:16888891..16892967,5	MCF-7	breast:

Extended variants
information (count: 122 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:121)

rs_ID	r²[population]
rs10741713	0.94[JPT][hapmap]
rs10766360	0.94[JPT][hapmap]
rs11024065	1.00[YRI][hapmap]
rs11024087	0.93[JPT][hapmap]
rs12418111	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs1638456	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1638457	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16933675	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs16933680	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs16933682	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs16933683	0.94[JPT][hapmap]
rs16933684	0.94[JPT][hapmap]
rs177546	0.84[ASN][1000 genomes]
rs177551	0.81[ASN][1000 genomes]
rs177554	0.83[ASN][1000 genomes]
rs177561	0.94[JPT][hapmap]
rs177562	0.94[JPT][hapmap]
rs177563	0.94[JPT][hapmap]
rs2057788	0.91[CEU][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2190752	0.94[JPT][hapmap]
rs2883150	0.94[JPT][hapmap]
rs369457	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs370053	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs370671	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs371905	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs373266	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs376641	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs378863	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs379051	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs380655	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs381815	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs382280	0.91[CEU][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs385627	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs385943	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs387849	0.91[CEU][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs388968	0.86[CHB][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs389967	0.91[CEU][hapmap];0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs390974	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs391332	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs392706	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs393633	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs397343	0.91[CEU][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs397373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs398216	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs400085	0.91[CEU][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs400349	0.91[CEU][hapmap];0.81[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs400458	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs401820	0.91[CEU][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs402982	0.90[CEU][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs404492	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs406109	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs406890	0.91[CEU][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs406937	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs407932	0.89[CEU][hapmap];0.82[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs409354	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs413858	0.90[ASN][1000 genomes]
rs414219	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs414992	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs415265	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs416258	0.84[JPT][hapmap]
rs417349	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs417406	0.91[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs418034	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs420975	0.91[CEU][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs422272	0.90[ASN][1000 genomes]
rs425325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs425745	0.90[CEU][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs426085	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs427429	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs428840	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs428933	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs429368	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs430211	0.91[CEU][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs431208	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs432046	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs432656	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs433212	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs433225	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs434761	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs434899	0.84[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs435206	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs439224	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs440212	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs443327	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs445146	0.91[CEU][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs445205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs445431	0.80[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs446518	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs446612	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs448671	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs450828	0.91[CEU][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs452414	0.91[CEU][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs452745	0.91[CEU][hapmap];0.93[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs453015	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs454538	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs454869	0.91[CEU][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4756875	0.93[JPT][hapmap]
rs4756876	0.94[JPT][hapmap]
rs4757449	0.94[JPT][hapmap]
rs4757451	0.94[JPT][hapmap]
rs4757452	0.93[JPT][hapmap]
rs4757454	0.94[JPT][hapmap]
rs4757456	0.94[JPT][hapmap]
rs4757457	0.94[JPT][hapmap]
rs58542530	0.88[ASN][1000 genomes]
rs58555284	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs59828007	0.80[ASN][1000 genomes]
rs61882035	0.88[ASN][1000 genomes]
rs61882036	0.88[ASN][1000 genomes]
rs61882037	0.88[ASN][1000 genomes]
rs61882038	0.86[ASN][1000 genomes]
rs6486326	0.94[JPT][hapmap]
rs7111470	0.94[JPT][hapmap]
rs7396552	0.88[JPT][hapmap]
rs7481080	0.88[JPT][hapmap]
rs758402	0.83[ASN][1000 genomes]
rs7924696	0.94[JPT][hapmap]
rs7926335	0.88[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs7932524	1.00[YRI][hapmap]
rs7939987	0.94[JPT][hapmap]
rs7951328	0.85[AMR][1000 genomes];0.88[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:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16863800-16892600	Weak transcription	Fetal Kidney	kidney
2	chr11:16872000-16895800	Weak transcription	Aorta	Aorta
3	chr11:16872600-16889600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr11:16876200-16888400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr11:16876600-16889800	Weak transcription	Adipose Nuclei	Adipose
6	chr11:16876600-16890800	Weak transcription	Colonic Mucosa	Colon
7	chr11:16876800-16898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr11:16877800-16890000	Weak transcription	Lung	lung
9	chr11:16877800-16892200	Weak transcription	Fetal Stomach	stomach
10	chr11:16877800-16899600	Weak transcription	Stomach Smooth Muscle	stomach
11	chr11:16878000-16889400	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr11:16878800-16890000	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr11:16879000-16887600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr11:16882200-16888400	Weak transcription	HMEC	breast
15	chr11:16882200-16888600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr11:16882400-16889200	Weak transcription	HepG2	liver
17	chr11:16882400-16894800	Weak transcription	Pancreas	Pancrea
18	chr11:16882400-16895800	Weak transcription	Gastric	stomach
19	chr11:16882600-16898400	Weak transcription	Ovary	ovary
20	chr11:16883000-16889600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr11:16884400-16887200	Strong transcription	Esophagus	oesophagus
22	chr11:16884400-16888800	Weak transcription	Liver	Liver
23	chr11:16884600-16897600	Weak transcription	Brain Hippocampus Middle	brain
24	chr11:16884800-16897600	Weak transcription	Brain Anterior Caudate	brain
25	chr11:16884800-16900000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr11:16885000-16891600	Weak transcription	HSMM	muscle
27	chr11:16885000-16900200	Weak transcription	Stomach Mucosa	stomach
28	chr11:16885200-16889600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr11:16885200-16891800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr11:16885200-16892400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr11:16885200-16894000	Weak transcription	Left Ventricle	heart
32	chr11:16885200-16894800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr11:16885200-16894800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr11:16885200-16902400	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr11:16885400-16887200	Enhancers	Fetal Heart	heart
36	chr11:16885400-16889800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr11:16885400-16889800	Weak transcription	Placenta	Placenta
38	chr11:16885400-16894800	Weak transcription	Right Ventricle	heart
39	chr11:16885400-16900800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
40	chr11:16885600-16890000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr11:16885800-16889200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr11:16885800-16890000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr11:16885800-16891600	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr11:16885800-16892000	Weak transcription	Rectal Smooth Muscle	rectum
45	chr11:16885800-16892800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr11:16886200-16891400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
47	chr11:16886400-16887000	Strong transcription	Fetal Intestine Large	intestine
48	chr11:16886800-16893000	Strong transcription	Fetal Intestine Small	intestine

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