Variant report

Variant	rs10780866
Chromosome Location	chr9:72776664-72776665
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 160 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:159)

rs_ID	r²[population]
rs10114223	0.83[AFR][1000 genomes]
rs10116027	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10116549	0.92[AFR][1000 genomes]
rs10125117	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10125454	0.88[AFR][1000 genomes]
rs10126027	0.92[AFR][1000 genomes]
rs1012992	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1012993	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10732697	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1073540	0.92[CHB][hapmap]
rs10746819	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10780851	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10780869	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10780870	0.91[AFR][1000 genomes]
rs10780871	0.92[AFR][1000 genomes]
rs10780898	0.81[ASN][1000 genomes]
rs10868741	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10868808	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs1112937	1.00[YRI][hapmap]
rs11141917	0.89[AFR][1000 genomes]
rs11142242	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11142348	0.95[YRI][hapmap]
rs11142354	0.83[ASN][1000 genomes]
rs11142356	0.83[ASN][1000 genomes]
rs11142363	0.91[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap];0.90[TSI][hapmap];0.96[YRI][hapmap];0.81[ASN][1000 genomes]
rs11142367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs11142368	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs11142370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.80[ASN][1000 genomes]
rs11142371	0.81[ASN][1000 genomes]
rs11142373	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs1180078	0.86[ASN][1000 genomes]
rs1180079	0.86[ASN][1000 genomes]
rs1180082	0.95[LWK][hapmap];0.90[MKK][hapmap];1.00[YRI][hapmap]
rs1180084	0.82[YRI][hapmap]
rs1180086	1.00[YRI][hapmap]
rs1180087	0.86[ASN][1000 genomes]
rs1180091	0.96[YRI][hapmap]
rs1180094	1.00[YRI][hapmap]
rs1180098	0.85[ASN][1000 genomes]
rs1180099	0.89[LWK][hapmap];0.88[MKK][hapmap];0.96[YRI][hapmap]
rs1180101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.85[ASN][1000 genomes]
rs1180102	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.85[ASN][1000 genomes]
rs1180103	0.85[ASN][1000 genomes]
rs1180104	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[ASN][1000 genomes]
rs1180105	0.94[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.85[ASN][1000 genomes]
rs1180106	0.85[ASN][1000 genomes]
rs1180107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.85[ASN][1000 genomes]
rs1180112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs1180114	0.83[ASN][1000 genomes]
rs1180115	0.83[ASN][1000 genomes]
rs1180117	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.83[ASN][1000 genomes]
rs1180118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs1180120	0.83[ASN][1000 genomes]
rs1180122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[ASN][1000 genomes]
rs1180124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.83[ASN][1000 genomes]
rs1180125	0.82[ASN][1000 genomes]
rs1180126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[ASN][1000 genomes]
rs1180127	1.00[YRI][hapmap]
rs1180128	0.82[ASN][1000 genomes]
rs1180132	0.82[ASN][1000 genomes]
rs1180133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[ASN][1000 genomes]
rs11998951	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.81[ASN][1000 genomes]
rs12006212	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.81[ASN][1000 genomes]
rs12156606	0.94[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12236327	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12377677	0.94[AFR][1000 genomes]
rs12380844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[ASN][1000 genomes]
rs12683986	0.91[CHB][hapmap]
rs17052443	0.92[CHB][hapmap]
rs17052748	0.92[CHB][hapmap]
rs1887452	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1927091	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927092	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1927093	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927098	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1927118	0.92[AFR][1000 genomes]
rs1927120	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927121	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927122	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927124	0.93[AFR][1000 genomes]
rs1927125	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1927126	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1927127	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927130	0.92[AFR][1000 genomes]
rs1927132	0.92[AFR][1000 genomes]
rs1927133	0.92[AFR][1000 genomes]
rs1927134	0.92[AFR][1000 genomes]
rs1927135	0.92[AFR][1000 genomes]
rs1927136	0.92[AFR][1000 genomes]
rs1927140	0.83[AFR][1000 genomes]
rs1927143	0.81[AFR][1000 genomes]
rs1927146	0.87[YRI][hapmap]
rs1927148	0.91[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap];0.83[MKK][hapmap];0.81[TSI][hapmap]
rs1927150	0.92[CHB][hapmap]
rs1986067	0.88[AFR][1000 genomes]
rs2026137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs2148863	0.85[AFR][1000 genomes]
rs2148866	0.92[AFR][1000 genomes]
rs2148867	0.93[AFR][1000 genomes]
rs2148868	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182731	0.88[ASN][1000 genomes]
rs2182735	0.80[ASW][hapmap];0.92[LWK][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap]
rs2182740	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2182741	0.93[AFR][1000 genomes]
rs2183362	0.82[ASN][1000 genomes]
rs2209781	0.81[AFR][1000 genomes]
rs2309632	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2309634	0.92[AFR][1000 genomes]
rs2309636	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2309644	1.00[YRI][hapmap]
rs2768644	0.86[ASN][1000 genomes]
rs2768645	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2768649	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2773362	0.86[ASN][1000 genomes]
rs2871291	0.94[ASN][1000 genomes]
rs2871293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap]
rs2871296	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4322072	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4378025	0.85[ASN][1000 genomes]
rs4449855	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.83[ASN][1000 genomes]
rs4531114	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4610818	0.92[CHB][hapmap]
rs4744591	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4744984	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4744986	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4744994	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744995	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4744997	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4744998	0.80[EUR][1000 genomes]
rs56345723	0.90[ASN][1000 genomes]
rs58720670	0.82[ASN][1000 genomes]
rs58881692	0.81[ASN][1000 genomes]
rs6560016	0.93[AFR][1000 genomes]
rs6560018	0.92[AFR][1000 genomes]
rs6560060	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66658020	0.81[ASN][1000 genomes]
rs7024117	0.93[AFR][1000 genomes]
rs7034322	1.00[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7041843	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7047789	0.95[LWK][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap]
rs716535	0.92[CHB][hapmap]
rs73454795	0.82[ASN][1000 genomes]
rs7852005	0.81[ASN][1000 genomes]
rs7853298	0.85[AFR][1000 genomes]
rs7854735	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7856528	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7857214	0.87[ASN][1000 genomes]
rs7857292	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7858389	0.81[ASN][1000 genomes]
rs7858988	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.82[ASN][1000 genomes]
rs7860729	0.89[AFR][1000 genomes]
rs7867727	0.81[ASN][1000 genomes]
rs7868564	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7875514	0.86[ASN][1000 genomes]
rs8181178	0.82[ASN][1000 genomes]
rs8181179	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs943536	0.91[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.83[ASN][1000 genomes]
rs943539	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs943540	1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[YRI][hapmap]

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:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72726800-72785200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr9:72741600-72789400	Weak transcription	Spleen	Spleen
3	chr9:72752000-72779600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr9:72759600-72800000	Weak transcription	Right Ventricle	heart
5	chr9:72759800-72792200	Weak transcription	HMEC	breast
6	chr9:72760000-72785200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr9:72766200-72785200	Weak transcription	Left Ventricle	heart
8	chr9:72767400-72780200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr9:72768600-72780200	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr9:72769400-72779800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr9:72770000-72783600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr9:72771600-72780200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr9:72773200-72783200	Weak transcription	Pancreas	Pancrea
14	chr9:72774600-72777200	Enhancers	Rectal Smooth Muscle	rectum
15	chr9:72774600-72777600	Enhancers	Colon Smooth Muscle	Colon
16	chr9:72774600-72777800	Enhancers	Fetal Stomach	stomach
17	chr9:72774600-72778000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr9:72774800-72780000	Weak transcription	NH-A	brain
19	chr9:72775000-72777000	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr9:72775000-72777200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr9:72775000-72777200	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr9:72775200-72779200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:72775200-72779400	Weak transcription	HSMM	muscle
24	chr9:72775200-72783600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:72775200-72800000	Weak transcription	Esophagus	oesophagus
26	chr9:72775400-72776800	Enhancers	Fetal Lung	lung
27	chr9:72775400-72777000	Enhancers	Rectal Mucosa Donor 31	rectum
28	chr9:72775600-72777200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr9:72775600-72777400	Weak transcription	Fetal Muscle Trunk	muscle
30	chr9:72775800-72777400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:72775800-72777400	Weak transcription	Ovary	ovary
32	chr9:72775800-72780200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr9:72775800-72785200	Weak transcription	Adipose Nuclei	Adipose
34	chr9:72776000-72777000	Weak transcription	Stomach Smooth Muscle	stomach
35	chr9:72776000-72777200	Enhancers	HUES48 Cell Line	embryonic stem cell
36	chr9:72776200-72776800	Weak transcription	HSMMtube	muscle
37	chr9:72776200-72777400	Weak transcription	Aorta	Aorta
38	chr9:72776400-72777400	Weak transcription	Fetal Muscle Leg	muscle
39	chr9:72776400-72780000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr9:72776600-72777000	Weak transcription	Muscle Satellite Cultured Cells	--
41	chr9:72776600-72778800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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