Variant report

Variant	rs11142029
Chromosome Location	chr9:72808843-72808844
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:72748007..72750453-chr9:72808216..72811141,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10119662	0.81[EUR][1000 genomes]
rs10125617	0.84[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap]
rs10511980	0.88[ASN][1000 genomes]
rs1052684	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs10868720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10868775	0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10868799	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs10868801	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10868806	0.89[ASW][hapmap];0.83[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.89[MEX][hapmap];0.93[MKK][hapmap];0.85[TSI][hapmap];1.00[YRI][hapmap]
rs11142098	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11142350	0.91[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap]
rs12344645	0.80[ASN][1000 genomes]
rs1536956	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs1927099	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1927102	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1927128	0.83[EUR][1000 genomes]
rs1927129	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927137	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927139	0.84[EUR][1000 genomes]
rs2026136	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs2182739	0.91[CEU][hapmap];0.86[JPT][hapmap]
rs2309611	0.87[CEU][hapmap]
rs2309633	0.84[EUR][1000 genomes]
rs2309642	0.86[EUR][1000 genomes]
rs4375070	0.91[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap]
rs4745000	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs6560019	0.83[EUR][1000 genomes]
rs7027209	0.91[CEU][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap]
rs7036266	0.82[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7038061	0.84[CEU][hapmap];0.80[YRI][hapmap]
rs943537	0.88[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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72793000-72842600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr9:72800800-72811600	Weak transcription	Esophagus	oesophagus
3	chr9:72801000-72810200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:72802000-72809000	Weak transcription	Ovary	ovary
5	chr9:72802000-72811000	Weak transcription	Pancreas	Pancrea
6	chr9:72802000-72827000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr9:72802200-72820000	Weak transcription	Fetal Lung	lung
8	chr9:72803400-72810800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:72804600-72816200	Weak transcription	Adipose Nuclei	Adipose
10	chr9:72805200-72820200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr9:72805800-72809000	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr9:72806400-72819600	Weak transcription	Liver	Liver
13	chr9:72807000-72809000	Weak transcription	HSMMtube	muscle
14	chr9:72807600-72813800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr9:72807800-72812000	Strong transcription	Stomach Smooth Muscle	stomach
16	chr9:72808000-72810200	Weak transcription	Aorta	Aorta
17	chr9:72808000-72810600	Weak transcription	Lung	lung
18	chr9:72808000-72819600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr9:72808000-72819600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr9:72808000-72820000	Weak transcription	HMEC	breast
21	chr9:72808000-72820400	Weak transcription	Left Ventricle	heart
22	chr9:72808200-72809400	Strong transcription	HSMM	muscle
23	chr9:72808200-72810800	Strong transcription	Colon Smooth Muscle	Colon
24	chr9:72808200-72812200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr9:72808200-72813000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr9:72808200-72820000	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr9:72808400-72809200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr9:72808800-72809600	Strong transcription	NH-A	brain

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