Variant report

Variant	rs9407788
Chromosome Location	chr9:17159180-17159181
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10511633	0.81[EUR][1000 genomes]
rs10810738	0.90[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10962886	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10962897	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10962898	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10962904	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10962917	0.81[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11562136	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12003380	0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1576957	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1930592	0.83[AMR][1000 genomes]
rs1930594	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2183502	0.95[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.97[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2210539	0.95[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2774629	0.84[AMR][1000 genomes]
rs2779761	1.00[CEU][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2779767	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2779768	0.95[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2779769	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2815174	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2815176	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2815177	0.81[AMR][1000 genomes]
rs2815179	0.91[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2815180	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2815182	0.84[AMR][1000 genomes]
rs2815183	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2815184	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3122360	0.81[EUR][1000 genomes]
rs4272490	0.80[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs4458955	0.90[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs4961530	0.80[AMR][1000 genomes]
rs4961531	1.00[CEU][hapmap];0.93[YRI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59047675	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6475113	0.95[CEU][hapmap];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6475114	0.80[AMR][1000 genomes]
rs6475115	0.80[AMR][1000 genomes]
rs6475121	0.87[ASN][1000 genomes]
rs7028249	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7034418	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7039814	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7048983	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7854322	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7862706	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7862811	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7864296	0.80[AMR][1000 genomes]
rs7870682	0.81[JPT][hapmap]
rs9407787	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv2764141	chr9:16903446-17351711	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892657	chr9:17008137-17223492	Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv892658	chr9:17041557-17532840	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv1023525	chr9:17121773-17236072	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
6	nsv892659	chr9:17130360-17236376	Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	nsv892660	chr9:17134245-17269437	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
8	nsv892661	chr9:17134245-17532840	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
9	nsv428537	chr9:17146369-17308494	Weak transcription ZNF genes & repeats Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv613693	chr9:17147191-17710407	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 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	chr9:17136000-17161000	Weak transcription	Psoas Muscle	Psoas
2	chr9:17136200-17159200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:17136200-17159600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr9:17136400-17163800	Weak transcription	Colon Smooth Muscle	Colon
5	chr9:17136400-17164200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:17137800-17160400	Weak transcription	Hela-S3	cervix
7	chr9:17146200-17167200	Weak transcription	Gastric	stomach
8	chr9:17146600-17159200	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr9:17146600-17160000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:17148800-17159400	Weak transcription	Fetal Kidney	kidney
11	chr9:17148800-17167400	Weak transcription	Dnd41	blood
12	chr9:17149400-17167400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr9:17154200-17162800	Weak transcription	Right Ventricle	heart
14	chr9:17155200-17159400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:17155400-17159400	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr9:17155400-17169400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:17155600-17169200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:17155800-17159200	Weak transcription	Fetal Intestine Large	intestine
19	chr9:17155800-17161800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr9:17155800-17164400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr9:17155800-17167400	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr9:17156000-17169000	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr9:17156000-17171400	Weak transcription	Liver	Liver
24	chr9:17156200-17159400	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr9:17156200-17159400	Weak transcription	Aorta	Aorta
26	chr9:17156200-17159600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr9:17156200-17159800	Weak transcription	Lung	lung
28	chr9:17156200-17160600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr9:17156200-17160800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr9:17156200-17161200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr9:17156200-17161400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr9:17156200-17162000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr9:17156200-17164200	Weak transcription	Fetal Muscle Trunk	muscle
34	chr9:17156200-17164400	Weak transcription	Stomach Smooth Muscle	stomach
35	chr9:17156200-17165600	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr9:17156200-17165800	Weak transcription	Fetal Muscle Leg	muscle
37	chr9:17156200-17166200	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr9:17156200-17167400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr9:17156200-17168800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr9:17156200-17168800	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr9:17156200-17169000	Weak transcription	Left Ventricle	heart
42	chr9:17156200-17171400	Weak transcription	Ovary	ovary
43	chr9:17156200-17171400	Weak transcription	Pancreas	Pancrea
44	chr9:17156200-17171600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr9:17156200-17177400	Weak transcription	Fetal Stomach	stomach
46	chr9:17156200-17178200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr9:17156200-17178800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr9:17156400-17169000	Weak transcription	Fetal Lung	lung
49	chr9:17157800-17169000	Weak transcription	Primary hematopoietic stem cells	blood
50	chr9:17158000-17167400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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