Variant report

Variant	rs12005789
Chromosome Location	chr9:103331141-103331142
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12002878	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1226587	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1226590	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1226591	0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1236813	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1628249	0.93[ASN][1000 genomes]
rs17742370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2780954	0.93[ASN][1000 genomes]
rs2780955	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2780956	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2780960	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2800280	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2800281	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2800283	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2800285	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2800289	0.93[ASN][1000 genomes]
rs2800290	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs57290629	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60422299	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs951868	0.89[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]

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	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103261600-103340200	Weak transcription	Left Ventricle	heart
2	chr9:103273600-103337600	Weak transcription	NHDF-Ad	bronchial
3	chr9:103278400-103333000	Weak transcription	Fetal Brain Male	brain
4	chr9:103307400-103331800	Weak transcription	Gastric	stomach
5	chr9:103307400-103332200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
6	chr9:103307400-103341800	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr9:103307400-103347800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr9:103308000-103340200	Weak transcription	Fetal Muscle Trunk	muscle
9	chr9:103308600-103345400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr9:103311800-103342400	Weak transcription	Primary hematopoietic stem cells	blood
11	chr9:103313200-103340800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr9:103313400-103331200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr9:103313400-103332000	Weak transcription	Fetal Lung	lung
14	chr9:103317200-103337400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:103318400-103342400	Weak transcription	Brain Anterior Caudate	brain
16	chr9:103318600-103344000	Weak transcription	Brain Cingulate Gyrus	brain
17	chr9:103319800-103336000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:103320000-103336400	Weak transcription	HSMM	muscle
19	chr9:103320200-103331200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:103322400-103331600	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr9:103322400-103340400	Weak transcription	Brain Substantia Nigra	brain
22	chr9:103322600-103341800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr9:103323000-103340200	Weak transcription	Brain Hippocampus Middle	brain
24	chr9:103323400-103332200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr9:103323400-103333400	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr9:103323400-103342000	Weak transcription	Brain Angular Gyrus	brain
27	chr9:103323600-103333000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr9:103323800-103340600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr9:103324000-103340200	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr9:103324800-103345400	Weak transcription	H9 Cell Line	embryonic stem cell
31	chr9:103325600-103331800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr9:103325600-103337600	Weak transcription	NHLF	lung
33	chr9:103326400-103337800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr9:103326600-103332400	Strong transcription	HUES6 Cell Line	embryonic stem cell
35	chr9:103327000-103331200	Strong transcription	Brain Germinal Matrix	brain
36	chr9:103327800-103349400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr9:103328600-103331600	Strong transcription	Fetal Brain Female	brain
38	chr9:103329600-103360800	Weak transcription	Aorta	Aorta
39	chr9:103329800-103351800	Weak transcription	Ovary	ovary
40	chr9:103330000-103357800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
41	chr9:103330400-103345400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr9:103330400-103351600	Weak transcription	Fetal Stomach	stomach
43	chr9:103330600-103331600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr9:103330800-103349400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr9:103331000-103331400	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived

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