Variant report

Variant	rs7850353
Chromosome Location	chr9:103326467-103326468
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	chr9:103324824..103326830-chr9:103336259..103338529,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1000477	0.86[EUR][1000 genomes]
rs10465119	0.88[ASN][1000 genomes]
rs10465147	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10465148	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10465149	0.88[ASN][1000 genomes]
rs10819785	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10819786	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10819787	0.85[EUR][1000 genomes]
rs10819789	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10989105	0.85[EUR][1000 genomes]
rs10989124	0.80[ASN][1000 genomes]
rs10989127	0.88[ASN][1000 genomes]
rs10989130	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10989131	0.80[ASN][1000 genomes]
rs10989140	0.85[ASN][1000 genomes]
rs10989143	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10989145	0.80[ASN][1000 genomes]
rs10989146	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10989147	0.88[ASN][1000 genomes]
rs10989150	0.89[ASN][1000 genomes]
rs10989151	0.80[ASN][1000 genomes]
rs10989152	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10989153	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10989154	0.96[ASN][1000 genomes]
rs10989156	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10989170	0.83[EUR][1000 genomes]
rs10989173	0.82[EUR][1000 genomes]
rs11793014	0.85[EUR][1000 genomes]
rs12057047	0.83[EUR][1000 genomes]
rs12235981	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12236970	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12683122	0.80[ASN][1000 genomes]
rs13286805	0.87[EUR][1000 genomes]
rs13292589	0.85[EUR][1000 genomes]
rs1332598	0.88[ASN][1000 genomes]
rs16919174	0.82[ASN][1000 genomes]
rs1930237	0.80[ASN][1000 genomes]
rs1930246	0.85[EUR][1000 genomes]
rs1931140	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2026423	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2069236	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2151106	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2183989	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2274882	0.82[ASN][1000 genomes]
rs34471402	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34816846	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4454331	0.82[EUR][1000 genomes]
rs55827987	0.96[ASN][1000 genomes]
rs56163523	0.96[ASN][1000 genomes]
rs59565932	0.80[ASN][1000 genomes]
rs59823190	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7021028	0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7028822	0.85[EUR][1000 genomes]
rs7029001	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7038306	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7042669	0.86[EUR][1000 genomes]
rs7049241	0.84[EUR][1000 genomes]
rs72735154	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	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:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103261600-103340200	Weak transcription	Left Ventricle	heart
2	chr9:103263400-103327600	Weak transcription	Aorta	Aorta
3	chr9:103273600-103337600	Weak transcription	NHDF-Ad	bronchial
4	chr9:103278400-103333000	Weak transcription	Fetal Brain Male	brain
5	chr9:103300200-103327400	Weak transcription	Ovary	ovary
6	chr9:103307400-103331800	Weak transcription	Gastric	stomach
7	chr9:103307400-103332200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
8	chr9:103307400-103341800	Strong transcription	HUES48 Cell Line	embryonic stem cell
9	chr9:103307400-103347800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr9:103308000-103327200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr9:103308000-103340200	Weak transcription	Fetal Muscle Trunk	muscle
12	chr9:103308600-103345400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr9:103311000-103328400	Weak transcription	Fetal Heart	heart
14	chr9:103311600-103330400	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:103311800-103342400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr9:103312000-103327200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr9:103312200-103328200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr9:103313200-103340800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr9:103313400-103329400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr9:103313400-103331200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr9:103313400-103332000	Weak transcription	Fetal Lung	lung
22	chr9:103317200-103337400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr9:103318400-103342400	Weak transcription	Brain Anterior Caudate	brain
24	chr9:103318600-103344000	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:103319800-103336000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr9:103320000-103327600	Weak transcription	HSMMtube	muscle
27	chr9:103320000-103336400	Weak transcription	HSMM	muscle
28	chr9:103320200-103331200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:103320600-103327600	Weak transcription	Fetal Brain Female	brain
30	chr9:103322400-103331600	Strong transcription	H1 Cell Line	embryonic stem cell
31	chr9:103322400-103340400	Weak transcription	Brain Substantia Nigra	brain
32	chr9:103322600-103331000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr9:103322600-103341800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr9:103323000-103340200	Weak transcription	Brain Hippocampus Middle	brain
35	chr9:103323400-103332200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr9:103323400-103333400	Strong transcription	HUES64 Cell Line	embryonic stem cell
37	chr9:103323400-103342000	Weak transcription	Brain Angular Gyrus	brain
38	chr9:103323600-103333000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr9:103323800-103340600	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr9:103324000-103340200	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr9:103324800-103329200	Weak transcription	Fetal Stomach	stomach
42	chr9:103324800-103345400	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr9:103325000-103326600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr9:103325600-103331800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr9:103325600-103337600	Weak transcription	NHLF	lung
46	chr9:103326000-103327000	Weak transcription	Brain Germinal Matrix	brain
47	chr9:103326200-103327600	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr9:103326400-103337800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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