Variant report

Variant	rs11142242
Chromosome Location	chr9:72844768-72844769
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:72762270..72763345-chr9:72843683..72845020,7	MCF-7	breast:
2	chr9:72586559..72587592-chr9:72844298..72845151,6	K562	blood:
3	chr9:72735746..72736503-chr9:72844295..72845240,3	MCF-7	breast:
4	chr9:72586588..72587213-chr9:72844309..72845161,2	MCF-7	breast:
5	chr9:72728136..72728905-chr9:72844176..72845074,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000204706	Chromatin interaction

Extended variants
information (count: 138 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:137)

rs_ID	r²[population]
rs10116027	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10117899	0.84[AFR][1000 genomes]
rs10125117	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1012992	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1012993	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10435957	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10732697	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10746819	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10780851	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10780866	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10780869	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10780898	0.87[ASN][1000 genomes]
rs10868741	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10868742	0.84[AFR][1000 genomes]
rs10868807	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10868808	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11142354	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11142356	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11142363	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11142367	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11142368	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11142370	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11142371	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11142373	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11142374	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1180078	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1180079	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1180081	0.81[AFR][1000 genomes]
rs1180083	0.81[AFR][1000 genomes]
rs1180086	0.81[AFR][1000 genomes]
rs1180087	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1180094	0.81[AFR][1000 genomes]
rs1180098	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180101	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180102	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180103	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180104	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180105	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180106	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180107	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1180112	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180114	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180115	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180117	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180118	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180120	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180122	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180124	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180125	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1180126	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1180128	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1180132	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1180133	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11998951	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12005666	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12006212	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12156606	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12236327	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12377766	0.96[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12379485	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12380844	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1887452	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927091	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1927092	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1927093	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1927098	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1927100	0.90[AFR][1000 genomes]
rs1927120	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1927121	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1927122	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1927125	0.92[ASN][1000 genomes]
rs1927126	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1927127	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2026137	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2148859	0.81[AFR][1000 genomes]
rs2148868	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2182731	0.90[ASN][1000 genomes]
rs2182740	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2183362	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2309632	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2309636	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2479032	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2768644	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2768645	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2768646	0.81[AFR][1000 genomes]
rs2768649	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2773362	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2773363	0.81[AFR][1000 genomes]
rs2871291	0.82[ASN][1000 genomes]
rs2871293	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2871296	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4279667	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4322072	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4357361	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4378025	0.86[ASN][1000 genomes]
rs4449855	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4531114	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4744591	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4744984	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744986	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4744994	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744995	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744997	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744998	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4744999	0.81[AFR][1000 genomes]
rs56059804	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56345723	0.88[ASN][1000 genomes]
rs58720670	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58879007	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58881692	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59013777	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61531415	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6560060	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6560129	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs66658020	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7019147	0.81[AFR][1000 genomes]
rs7020447	0.81[AFR][1000 genomes]
rs7034322	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7041843	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73454795	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7852005	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7854735	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856528	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7857214	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7857292	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7858389	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7858907	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7858988	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7867727	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7868564	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7869429	0.84[AFR][1000 genomes]
rs7875514	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8181178	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8181179	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs943536	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs943539	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9696790	0.80[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:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72821200-72844800	Weak transcription	HMEC	breast
2	chr9:72828000-72858800	Weak transcription	Gastric	stomach
3	chr9:72830800-72845200	Weak transcription	Duodenum Mucosa	Duodenum
4	chr9:72832400-72848800	Weak transcription	Lung	lung
5	chr9:72833600-72856800	Weak transcription	Aorta	Aorta
6	chr9:72837200-72847200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr9:72839800-72844800	Weak transcription	HSMMtube	muscle
8	chr9:72843000-72845000	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr9:72843000-72846200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr9:72843200-72844800	Enhancers	Placenta Amnion	Placenta Amnion
11	chr9:72843200-72845000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr9:72843200-72845000	Enhancers	Fetal Lung	lung
13	chr9:72843200-72845000	Enhancers	Ovary	ovary
14	chr9:72843200-72845200	Enhancers	Duodenum Smooth Muscle	Duodenum
15	chr9:72843200-72845800	Enhancers	Fetal Muscle Leg	muscle
16	chr9:72843200-72845800	Enhancers	Stomach Smooth Muscle	stomach
17	chr9:72843400-72845000	Enhancers	Colon Smooth Muscle	Colon
18	chr9:72843400-72845000	Enhancers	Fetal Stomach	stomach
19	chr9:72843600-72845000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr9:72843600-72845000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr9:72844000-72844800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr9:72844000-72845000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr9:72844000-72845000	Enhancers	NHDF-Ad	bronchial
24	chr9:72844000-72845000	Enhancers	NHLF	lung
25	chr9:72844000-72845800	Enhancers	HSMM	muscle
26	chr9:72844200-72844800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr9:72844200-72847200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr9:72844200-72849200	Weak transcription	Right Ventricle	heart
29	chr9:72844400-72845000	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr9:72844400-72855400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:72844600-72845000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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