Variant report

Variant	rs428840
Chromosome Location	chr11:16896218-16896219
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs10741713	0.94[JPT][hapmap]
rs10766360	0.93[JPT][hapmap]
rs11024087	0.92[JPT][hapmap]
rs12418111	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1638456	0.91[ASN][1000 genomes]
rs1638457	0.94[ASN][1000 genomes]
rs16933675	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16933680	0.92[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap]
rs16933682	0.93[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap]
rs16933683	0.94[JPT][hapmap]
rs16933684	0.93[JPT][hapmap]
rs177544	0.92[CEU][hapmap]
rs177546	0.87[AFR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs177551	0.82[ASN][1000 genomes]
rs177554	0.85[ASN][1000 genomes]
rs177561	0.94[JPT][hapmap]
rs177562	0.93[JPT][hapmap]
rs177563	0.93[JPT][hapmap]
rs2057788	0.94[JPT][hapmap]
rs2190752	0.94[JPT][hapmap]
rs2883150	0.93[JPT][hapmap]
rs369457	0.94[JPT][hapmap]
rs371905	0.94[JPT][hapmap]
rs378863	0.94[ASN][1000 genomes]
rs381815	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs382280	0.86[JPT][hapmap]
rs387849	0.94[JPT][hapmap]
rs388968	0.91[CEU][hapmap];0.86[CHB][hapmap];0.93[JPT][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs389967	0.87[JPT][hapmap]
rs390974	0.94[JPT][hapmap]
rs391332	0.91[ASN][1000 genomes]
rs393633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs397343	0.94[JPT][hapmap]
rs397373	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs400085	0.94[JPT][hapmap]
rs400349	0.80[JPT][hapmap]
rs400458	0.94[JPT][hapmap]
rs401820	0.94[JPT][hapmap]
rs402982	0.88[JPT][hapmap]
rs406890	0.94[JPT][hapmap]
rs407354	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs407932	0.82[JPT][hapmap]
rs409354	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs413858	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs414219	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs414992	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs416258	0.84[JPT][hapmap]
rs417406	0.87[JPT][hapmap]
rs420975	0.94[JPT][hapmap]
rs422272	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs425325	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs425745	0.86[JPT][hapmap]
rs427429	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs428933	0.94[JPT][hapmap]
rs430211	0.94[JPT][hapmap]
rs431208	0.94[JPT][hapmap]
rs432046	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs433212	0.94[JPT][hapmap]
rs433225	0.94[JPT][hapmap]
rs434761	0.94[JPT][hapmap]
rs434899	1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs435206	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs440212	0.94[JPT][hapmap]
rs445146	0.94[JPT][hapmap]
rs445205	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs445431	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs446518	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs448671	0.88[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs450828	0.94[JPT][hapmap]
rs452414	0.94[JPT][hapmap]
rs452745	0.93[JPT][hapmap]
rs454869	0.94[JPT][hapmap]
rs4756875	0.93[JPT][hapmap]
rs4756876	0.93[JPT][hapmap]
rs4757449	0.93[JPT][hapmap]
rs4757451	0.94[JPT][hapmap]
rs4757452	0.93[JPT][hapmap]
rs4757454	0.93[JPT][hapmap]
rs4757456	0.93[JPT][hapmap]
rs4757457	0.93[JPT][hapmap]
rs58542530	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59828007	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs61882035	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61882036	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61882037	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61882038	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6486326	0.94[JPT][hapmap]
rs7111470	0.94[JPT][hapmap]
rs7396552	0.87[JPT][hapmap]
rs7481080	0.88[JPT][hapmap]
rs758402	0.85[ASN][1000 genomes]
rs7924696	0.94[JPT][hapmap]
rs7926335	0.88[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs7926392	0.90[YRI][hapmap]
rs7931046	0.82[YRI][hapmap]
rs7939987	0.94[JPT][hapmap]
rs7947282	1.00[YRI][hapmap]
rs7947562	0.91[YRI][hapmap]

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:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16876800-16898600	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr11:16877800-16899600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr11:16882600-16898400	Weak transcription	Ovary	ovary
4	chr11:16884600-16897600	Weak transcription	Brain Hippocampus Middle	brain
5	chr11:16884800-16897600	Weak transcription	Brain Anterior Caudate	brain
6	chr11:16884800-16900000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr11:16885000-16900200	Weak transcription	Stomach Mucosa	stomach
8	chr11:16885200-16902400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr11:16885400-16900800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr11:16890200-16897600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr11:16890400-16899000	Weak transcription	Adipose Nuclei	Adipose
12	chr11:16891000-16900000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr11:16891000-16900800	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr11:16891000-16901000	Weak transcription	Lung	lung
15	chr11:16891200-16904600	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr11:16891600-16897600	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr11:16891600-16903600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr11:16891800-16899200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr11:16892000-16897400	Weak transcription	Placenta	Placenta
20	chr11:16892800-16898400	Enhancers	Fetal Heart	heart
21	chr11:16893000-16897200	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr11:16893400-16896400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr11:16893400-16897000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr11:16893400-16897400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr11:16893400-16901600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr11:16893400-16902600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr11:16893800-16896400	Weak transcription	HMEC	breast
28	chr11:16894200-16896800	Enhancers	HSMMtube	muscle
29	chr11:16894200-16897200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:16894800-16896400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr11:16894800-16896400	Enhancers	Pancreas	Pancrea
32	chr11:16895000-16898200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr11:16895200-16897400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
34	chr11:16895200-16897400	Weak transcription	Left Ventricle	heart
35	chr11:16895200-16897800	Weak transcription	Right Ventricle	heart
36	chr11:16895200-16898000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr11:16895200-16898000	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr11:16895600-16896600	Enhancers	Duodenum Mucosa	Duodenum
39	chr11:16895600-16898200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr11:16895600-16898400	Enhancers	HepG2	liver
41	chr11:16895800-16896400	Enhancers	Fetal Intestine Large	intestine
42	chr11:16895800-16896400	Enhancers	Gastric	stomach
43	chr11:16895800-16896800	Enhancers	Fetal Intestine Small	intestine
44	chr11:16896000-16896600	Enhancers	HSMM	muscle
45	chr11:16896000-16896800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr11:16896000-16899400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr11:16896200-16896400	Enhancers	Liver	Liver
48	chr11:16896200-16896400	Enhancers	Right Atrium	heart
49	chr11:16896200-16896600	Enhancers	Duodenum Smooth Muscle	Duodenum
50	chr11:16896200-16896600	Enhancers	Fetal Muscle Leg	muscle

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