Variant report

Variant	rs2309642
Chromosome Location	chr9:72813473-72813474
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10119662	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10125617	0.86[JPT][hapmap]
rs1052684	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs10780923	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10868720	0.87[CEU][hapmap];0.86[JPT][hapmap]
rs10868752	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10868757	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10868799	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10868801	0.87[JPT][hapmap]
rs10868806	0.85[JPT][hapmap]
rs11142029	0.86[EUR][1000 genomes]
rs11142098	0.81[EUR][1000 genomes]
rs11142350	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1536956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1927115	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1927128	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927129	0.82[EUR][1000 genomes]
rs1927137	0.84[EUR][1000 genomes]
rs1927139	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2026136	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2148861	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2182736	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2182739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2210086	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2281935	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2309611	0.95[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2309612	0.82[EUR][1000 genomes]
rs2309633	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2309647	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3847321	0.89[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs3858107	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4375070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4744990	0.81[ASN][1000 genomes]
rs4745000	0.86[JPT][hapmap]
rs6560019	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7021420	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7027209	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7043043	0.81[EUR][1000 genomes]
rs7469211	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7866915	0.81[EUR][1000 genomes]
rs9650766	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[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	nsv1047862	chr9:72746875-73138287	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72793000-72842600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:72802000-72827000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:72802200-72820000	Weak transcription	Fetal Lung	lung
4	chr9:72804600-72816200	Weak transcription	Adipose Nuclei	Adipose
5	chr9:72805200-72820200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:72806400-72819600	Weak transcription	Liver	Liver
7	chr9:72807600-72813800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr9:72808000-72819600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr9:72808000-72819600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:72808000-72820000	Weak transcription	HMEC	breast
11	chr9:72808000-72820400	Weak transcription	Left Ventricle	heart
12	chr9:72808200-72820000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr9:72809400-72820400	Weak transcription	HSMM	muscle
14	chr9:72809600-72837800	Weak transcription	NH-A	brain
15	chr9:72810800-72827800	Weak transcription	Colon Smooth Muscle	Colon
16	chr9:72811400-72820400	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr9:72811800-72813800	Weak transcription	Ovary	ovary
18	chr9:72812000-72820400	Weak transcription	Stomach Smooth Muscle	stomach
19	chr9:72812200-72819600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr9:72813000-72820000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr9:72813000-72820400	Weak transcription	HSMMtube	muscle

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