Variant report

Variant	rs12787996
Chromosome Location	chr11:102057068-102057069
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10895272	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[EUR][1000 genomes]
rs10895273	0.92[EUR][1000 genomes]
rs10895274	0.92[EUR][1000 genomes]
rs10895275	0.92[EUR][1000 genomes]
rs10895276	0.96[CEU][hapmap];0.92[EUR][1000 genomes]
rs10895277	0.95[CEU][hapmap];0.86[CHB][hapmap];0.92[EUR][1000 genomes]
rs10895278	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[EUR][1000 genomes]
rs11225155	0.82[AFR][1000 genomes]
rs11225156	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11225160	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11225163	0.95[CEU][hapmap];0.89[EUR][1000 genomes]
rs11225165	0.92[EUR][1000 genomes]
rs11225167	0.89[EUR][1000 genomes]
rs11225170	0.91[CEU][hapmap];0.86[CHB][hapmap];0.84[EUR][1000 genomes]
rs11225174	0.96[CEU][hapmap];0.86[CHB][hapmap];0.89[EUR][1000 genomes]
rs11605954	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11608234	0.87[EUR][1000 genomes]
rs12223991	0.88[EUR][1000 genomes]
rs12226331	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs12420287	0.91[EUR][1000 genomes]
rs12421242	0.89[EUR][1000 genomes]
rs12786272	0.88[EUR][1000 genomes]
rs12790399	0.87[EUR][1000 genomes]
rs12793501	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12795624	0.96[CEU][hapmap];0.83[YRI][hapmap];0.91[EUR][1000 genomes]
rs12807220	0.83[EUR][1000 genomes]
rs17097547	0.96[CEU][hapmap];0.86[CHB][hapmap];0.80[JPT][hapmap];0.86[EUR][1000 genomes]
rs17097560	0.96[CEU][hapmap];0.86[CHB][hapmap];0.80[JPT][hapmap];0.88[EUR][1000 genomes]
rs1820455	0.88[EUR][1000 genomes]
rs1893498	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1942683	0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs2187525	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2282652	0.95[CEU][hapmap];0.86[CHB][hapmap];0.87[EUR][1000 genomes]
rs3858420	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs4447144	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4475891	0.95[CEU][hapmap];0.87[EUR][1000 genomes]
rs4754041	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57027482	0.85[EUR][1000 genomes]
rs58751289	0.87[EUR][1000 genomes]
rs7110557	0.96[CEU][hapmap];0.89[EUR][1000 genomes]
rs7120067	0.91[CEU][hapmap];0.83[YRI][hapmap];0.85[EUR][1000 genomes]
rs7122907	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[EUR][1000 genomes]
rs7124247	0.87[EUR][1000 genomes]
rs7931576	0.96[CEU][hapmap];0.88[EUR][1000 genomes]
rs7942061	0.88[EUR][1000 genomes]
rs8504	0.95[CEU][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3362945	chr11:101736547-102114246	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv898333	chr11:101832670-102079986	Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1052348	chr11:101987090-102255753	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv556141	chr11:101988061-102207851	Weak transcription Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1050961	chr11:101993880-102253717	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv1051735	chr11:101993880-102255753	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv530646	chr11:102000840-102238992	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
8	nsv832251	chr11:102012295-102181744	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
9	nsv1043388	chr11:102017719-102172857	Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:102026400-102059400	Weak transcription	Fetal Brain Male	brain
2	chr11:102028000-102062800	Weak transcription	Duodenum Mucosa	Duodenum
3	chr11:102029200-102067600	Weak transcription	HSMMtube	muscle
4	chr11:102033400-102061000	Weak transcription	Right Ventricle	heart
5	chr11:102034400-102057200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr11:102034600-102076800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr11:102036000-102069400	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr11:102041600-102062400	Weak transcription	Left Ventricle	heart
9	chr11:102042800-102057200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:102043800-102077000	Weak transcription	Esophagus	oesophagus
11	chr11:102043800-102100400	Weak transcription	Pancreas	Pancrea
12	chr11:102046800-102076600	Weak transcription	Stomach Smooth Muscle	stomach
13	chr11:102047000-102057200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr11:102048200-102062400	Weak transcription	Liver	Liver
15	chr11:102048400-102065200	Weak transcription	Aorta	Aorta
16	chr11:102048400-102073600	Weak transcription	Psoas Muscle	Psoas
17	chr11:102048400-102077200	Weak transcription	Lung	lung
18	chr11:102049600-102057800	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr11:102050000-102057200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr11:102050000-102057600	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr11:102050200-102061600	Weak transcription	Small Intestine	intestine
22	chr11:102050400-102076600	Weak transcription	Placenta	Placenta
23	chr11:102050800-102057400	Weak transcription	A549	lung
24	chr11:102051000-102057200	Weak transcription	NHEK	skin
25	chr11:102051400-102076600	Weak transcription	Fetal Muscle Trunk	muscle
26	chr11:102052000-102062400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr11:102052000-102076600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr11:102052400-102057200	Weak transcription	Fetal Intestine Small	intestine
29	chr11:102054200-102059600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr11:102054400-102058400	Enhancers	NHDF-Ad	bronchial
31	chr11:102054800-102057200	Enhancers	HepG2	liver
32	chr11:102055000-102057400	Strong transcription	HSMM	muscle
33	chr11:102055000-102059200	Enhancers	Fetal Lung	lung
34	chr11:102055400-102057200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr11:102055400-102058200	Enhancers	ES-I3 Cell Line	embryonic stem cell
36	chr11:102055400-102058400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr11:102055600-102057200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr11:102055600-102057200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr11:102055600-102057400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
40	chr11:102055600-102057600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr11:102055600-102058600	Weak transcription	Gastric	stomach
42	chr11:102055600-102059600	Enhancers	Fetal Stomach	stomach
43	chr11:102055800-102057800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr11:102055800-102058600	Weak transcription	Adipose Nuclei	Adipose
45	chr11:102055800-102059200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr11:102056000-102057200	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr11:102056000-102057200	Weak transcription	Fetal Muscle Leg	muscle
48	chr11:102056000-102063200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr11:102056000-102078400	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr11:102056200-102057200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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