Variant report

Variant	rs56163523
Chromosome Location	chr9:103328193-103328194
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs1000477	0.81[ASN][1000 genomes]
rs10465118	0.90[EUR][1000 genomes]
rs10465119	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10465145	0.95[EUR][1000 genomes]
rs10465147	0.92[ASN][1000 genomes]
rs10465148	0.92[ASN][1000 genomes]
rs10465149	0.92[ASN][1000 genomes]
rs10512270	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10512271	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10819775	1.00[EUR][1000 genomes]
rs10819779	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10819781	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10819789	0.82[ASN][1000 genomes]
rs10819790	0.81[ASN][1000 genomes]
rs10989085	1.00[EUR][1000 genomes]
rs10989091	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989095	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989099	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989103	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989104	0.81[ASN][1000 genomes]
rs10989107	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989108	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989111	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989113	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989114	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989115	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989121	0.81[ASN][1000 genomes]
rs10989124	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989127	0.92[ASN][1000 genomes]
rs10989130	0.82[ASN][1000 genomes]
rs10989131	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989134	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10989135	0.81[ASN][1000 genomes]
rs10989140	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10989142	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10989143	0.81[ASN][1000 genomes]
rs10989144	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10989145	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989146	0.92[ASN][1000 genomes]
rs10989147	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10989150	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10989151	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10989152	1.00[ASN][1000 genomes]
rs10989153	1.00[ASN][1000 genomes]
rs10989154	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989156	1.00[ASN][1000 genomes]
rs12056981	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12235981	1.00[ASN][1000 genomes]
rs12236071	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12236952	0.86[EUR][1000 genomes]
rs12236970	1.00[ASN][1000 genomes]
rs12237481	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12238560	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12682741	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12683122	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12683548	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1332598	0.92[ASN][1000 genomes]
rs16919136	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16919174	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16919204	0.82[ASN][1000 genomes]
rs16919211	0.82[ASN][1000 genomes]
rs1930237	0.82[ASN][1000 genomes]
rs1931140	1.00[ASN][1000 genomes]
rs2026423	0.82[ASN][1000 genomes]
rs2151106	0.92[ASN][1000 genomes]
rs2183989	0.92[ASN][1000 genomes]
rs2274881	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2274882	0.84[ASN][1000 genomes]
rs34816846	0.97[ASN][1000 genomes]
rs55757829	0.82[ASN][1000 genomes]
rs55827987	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56012200	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56020062	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56050588	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs56122790	0.95[EUR][1000 genomes]
rs56170030	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56290508	0.82[ASN][1000 genomes]
rs56354846	0.82[ASN][1000 genomes]
rs59565932	0.82[ASN][1000 genomes]
rs59611728	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59823190	1.00[ASN][1000 genomes]
rs7021028	1.00[ASN][1000 genomes]
rs7024666	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7028822	0.81[ASN][1000 genomes]
rs7029001	0.82[ASN][1000 genomes]
rs7038306	0.92[ASN][1000 genomes]
rs72735107	1.00[EUR][1000 genomes]
rs72735119	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72735122	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72735140	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72735148	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72735154	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7850353	0.96[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:47 , 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	chr9:103311000-103328400	Weak transcription	Fetal Heart	heart
11	chr9:103311600-103330400	Weak transcription	Stomach Smooth Muscle	stomach
12	chr9:103311800-103342400	Weak transcription	Primary hematopoietic stem cells	blood
13	chr9:103312200-103328200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr9:103313200-103340800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr9:103313400-103329400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr9:103313400-103331200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr9:103313400-103332000	Weak transcription	Fetal Lung	lung
18	chr9:103317200-103337400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr9:103318400-103342400	Weak transcription	Brain Anterior Caudate	brain
20	chr9:103318600-103344000	Weak transcription	Brain Cingulate Gyrus	brain
21	chr9:103319800-103336000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:103320000-103336400	Weak transcription	HSMM	muscle
23	chr9:103320200-103331200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:103322400-103331600	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr9:103322400-103340400	Weak transcription	Brain Substantia Nigra	brain
26	chr9:103322600-103331000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr9:103322600-103341800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr9:103323000-103340200	Weak transcription	Brain Hippocampus Middle	brain
29	chr9:103323400-103332200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr9:103323400-103333400	Strong transcription	HUES64 Cell Line	embryonic stem cell
31	chr9:103323400-103342000	Weak transcription	Brain Angular Gyrus	brain
32	chr9:103323600-103333000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:103323800-103340600	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr9:103324000-103340200	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr9:103324800-103329200	Weak transcription	Fetal Stomach	stomach
36	chr9:103324800-103345400	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr9:103325600-103331800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr9:103325600-103337600	Weak transcription	NHLF	lung
39	chr9:103326400-103337800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr9:103326600-103332400	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr9:103327000-103331200	Strong transcription	Brain Germinal Matrix	brain
42	chr9:103327200-103328600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr9:103327400-103328200	Strong transcription	Ovary	ovary
44	chr9:103327600-103328200	Strong transcription	Fetal Brain Female	brain
45	chr9:103327600-103329600	Strong transcription	Aorta	Aorta
46	chr9:103327800-103329400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr9:103327800-103349400	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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