Variant report

Variant	rs1812782
Chromosome Location	chr9:8780202-8780203
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10124559	0.80[ASN][1000 genomes]
rs1036326	0.80[EUR][1000 genomes]
rs1036327	0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs1036328	0.85[CHD][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes]
rs1036331	0.80[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10733548	0.82[CHB][hapmap];0.86[JPT][hapmap];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10758989	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10758990	0.85[JPT][hapmap]
rs10758991	0.86[JPT][hapmap]
rs10758992	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10815931	0.86[JPT][hapmap]
rs10815933	0.87[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10815934	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10815941	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs10977274	0.82[ASN][1000 genomes]
rs12003472	0.87[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12340244	0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs12349666	0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12350639	0.82[JPT][hapmap]
rs2033553	0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs2033555	0.82[JPT][hapmap]
rs2117327	0.80[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2117328	0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs2117329	0.90[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.82[TSI][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2381897	0.80[ASN][1000 genomes]
rs2381898	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2381899	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2381900	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2381901	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2381902	0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2890831	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3948324	0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs4460431	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4742533	0.82[CHB][hapmap];0.83[CHD][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs4742535	0.86[CHB][hapmap];0.84[CHD][hapmap];0.81[JPT][hapmap]
rs4742537	0.82[JPT][hapmap]
rs6477348	0.86[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7026316	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7042505	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7045482	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7846940	0.94[CHB][hapmap];0.86[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7848017	0.85[JPT][hapmap]
rs7853986	0.84[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7863593	0.91[CHB][hapmap];0.91[CHD][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs7868093	0.80[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8181076	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8181195	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs956154	0.87[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.82[TSI][hapmap];0.80[EUR][1000 genomes];0.86[ASN][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	nsv1022796	chr9:8360729-9110046	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv892235	chr9:8700396-8865925	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1025800	chr9:8712487-9030627	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv539980	chr9:8712487-9030627	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv892236	chr9:8745520-8870553	Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv892237	chr9:8752743-8794314	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region	1 gene(s)	inside rSNPs	diseases
7	nsv1015898	chr9:8753534-9011443	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv892238	chr9:8757828-8794314	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region	1 gene(s)	inside rSNPs	diseases
9	nsv892239	chr9:8773599-8805462	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region	1 gene(s)	inside rSNPs	diseases
10	esv2761247	chr9:8775019-8786718	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8763200-8780600	Weak transcription	Fetal Kidney	kidney
2	chr9:8764800-8783600	Weak transcription	Fetal Stomach	stomach
3	chr9:8777600-8782000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr9:8777800-8780600	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr9:8778000-8781200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr9:8778000-8782000	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr9:8778200-8781400	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr9:8778200-8781600	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr9:8778400-8781800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr9:8778400-8782000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:8778600-8781600	Weak transcription	Ovary	ovary
12	chr9:8778600-8785600	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr9:8778800-8798600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr9:8779000-8780600	Weak transcription	Fetal Heart	heart
15	chr9:8779000-8780800	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr9:8779000-8781000	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr9:8779000-8781200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr9:8779000-8781800	Enhancers	Brain Anterior Caudate	brain
19	chr9:8779000-8782000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr9:8779200-8781000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr9:8779200-8781800	Enhancers	Brain Hippocampus Middle	brain
22	chr9:8779600-8781800	Enhancers	Brain Angular Gyrus	brain
23	chr9:8779600-8781800	Enhancers	Fetal Lung	lung
24	chr9:8779800-8781400	Enhancers	Brain Substantia Nigra	brain
25	chr9:8779800-8781600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr9:8779800-8784000	Weak transcription	Aorta	Aorta
27	chr9:8779800-8784600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr9:8780000-8782000	Enhancers	Brain Cingulate Gyrus	brain
29	chr9:8780200-8780400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
30	chr9:8780200-8781200	Enhancers	HUES48 Cell Line	embryonic stem cell

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