Variant report

Variant	rs3901516
Chromosome Location	chr11:100639874-100639875
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs17095405	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17095409	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17095426	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17095428	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17095429	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17095438	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17095439	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2088953	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2407750	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4087602	0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4121392	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4337001	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4469852	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4517481	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs499241	1.00[ASN][1000 genomes]
rs507695	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs58727919	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60708905	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61890760	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61890763	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61890764	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61890765	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61890766	1.00[ASN][1000 genomes]
rs61892334	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61892352	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61892355	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61910508	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7102634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7105842	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7110872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7112228	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7112366	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7116153	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7117515	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7120712	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7126324	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7130855	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73005729	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7927197	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7942588	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7944598	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7947761	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv520995	chr11:100163957-100681211	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv530643	chr11:100196082-100713156	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:100621000-100642400	Weak transcription	Stomach Smooth Muscle	stomach
2	chr11:100624600-100655600	Weak transcription	Left Ventricle	heart
3	chr11:100624600-100655600	Weak transcription	Right Ventricle	heart
4	chr11:100628200-100642800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr11:100629200-100642800	Weak transcription	Liver	Liver
6	chr11:100631800-100645000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr11:100632000-100640000	Weak transcription	Fetal Heart	heart
8	chr11:100632200-100640000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr11:100632200-100645200	Weak transcription	Colonic Mucosa	Colon
10	chr11:100632200-100647200	Weak transcription	HSMM	muscle
11	chr11:100632800-100645000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr11:100632800-100645000	Weak transcription	Gastric	stomach
13	chr11:100633000-100641600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr11:100633000-100647000	Weak transcription	NHLF	lung
15	chr11:100633200-100641800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr11:100633200-100641800	Weak transcription	Fetal Muscle Leg	muscle
17	chr11:100633200-100642600	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr11:100633200-100655600	Weak transcription	Psoas Muscle	Psoas
19	chr11:100633600-100647400	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr11:100635200-100647400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr11:100635400-100649400	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr11:100635800-100645600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr11:100636600-100643000	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr11:100637000-100644400	Weak transcription	Duodenum Mucosa	Duodenum
25	chr11:100637400-100640200	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr11:100638400-100641200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr11:100638600-100640200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr11:100638600-100641400	Weak transcription	Placenta	Placenta
29	chr11:100639000-100640800	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr11:100639000-100640800	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr11:100639200-100640800	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr11:100639200-100640800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr11:100639400-100640600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr11:100639600-100640200	Enhancers	H1 Cell Line	embryonic stem cell
35	chr11:100639600-100640200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr11:100639600-100640200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr11:100639600-100640200	Enhancers	Fetal Intestine Small	intestine
38	chr11:100639600-100640200	Enhancers	Fetal Lung	lung
39	chr11:100639600-100640400	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr11:100639600-100640800	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr11:100639600-100640800	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr11:100639600-100640800	Enhancers	iPS-18 Cell Line	embryonic stem cell
43	chr11:100639600-100641000	Enhancers	Stomach Mucosa	stomach
44	chr11:100639600-100641200	Enhancers	A549	lung
45	chr11:100639800-100640000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr11:100639800-100640000	Enhancers	Fetal Kidney	kidney
47	chr11:100639800-100640000	Enhancers	Small Intestine	intestine
48	chr11:100639800-100640400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr11:100639800-100640600	Enhancers	Fetal Intestine Large	intestine
50	chr11:100639800-100640800	Enhancers	ES-I3 Cell Line	embryonic stem cell

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