Variant report

Variant	rs9754885
Chromosome Location	chr3:142477900-142477901
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs11717993	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1382688	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1604	0.80[ASN][1000 genomes]
rs2033912	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2177398	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2354856	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs28658009	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28689551	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34445140	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4530572	0.80[EUR][1000 genomes]
rs4539980	0.80[ASN][1000 genomes]
rs4643748	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55722370	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56666685	0.85[EUR][1000 genomes]
rs57026466	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59108985	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60294656	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60319320	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60752859	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6440108	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6440110	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66897945	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6772222	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6777466	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6790959	0.80[ASN][1000 genomes]
rs6798849	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6803681	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73232711	0.85[EUR][1000 genomes]
rs7621642	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7623977	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7628728	0.80[ASN][1000 genomes]
rs7635768	0.84[EUR][1000 genomes]
rs7637826	0.84[EUR][1000 genomes]
rs7637846	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7638459	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7639403	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7641514	0.85[EUR][1000 genomes]
rs7642332	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7644704	0.80[ASN][1000 genomes]
rs7646197	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7647291	0.80[ASN][1000 genomes]
rs7653309	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9758429	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9815607	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9820721	0.81[ASN][1000 genomes]
rs9824476	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9835135	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9836269	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9849461	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9864230	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9868886	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591920	chr3:142411200-142496951	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv521098	chr3:142411200-142503605	Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv518623	chr3:142417070-142503605	Weak transcription Active TSS Enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142445000-142479000	Weak transcription	Fetal Brain Female	brain
2	chr3:142452800-142489000	Weak transcription	Aorta	Aorta
3	chr3:142458000-142482800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:142464800-142493200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:142466000-142488400	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:142466400-142478200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr3:142466400-142479000	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:142467800-142503400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr3:142468000-142486800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr3:142468200-142486800	Weak transcription	Brain Anterior Caudate	brain
11	chr3:142468200-142487600	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr3:142468200-142489800	Weak transcription	Ovary	ovary
13	chr3:142468200-142511000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr3:142468200-142525200	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:142468400-142480400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr3:142468400-142480800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr3:142468400-142483000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:142468400-142483200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr3:142468400-142484000	Weak transcription	Fetal Lung	lung
20	chr3:142468400-142488200	Weak transcription	A549	lung
21	chr3:142468400-142489800	Weak transcription	NH-A	brain
22	chr3:142468400-142498000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr3:142468400-142501400	Weak transcription	Fetal Muscle Trunk	muscle
24	chr3:142468400-142501400	Weak transcription	HSMM	muscle
25	chr3:142468400-142501600	Weak transcription	Left Ventricle	heart
26	chr3:142468400-142508800	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:142468400-142525200	Weak transcription	Fetal Brain Male	brain
28	chr3:142468400-142526800	Weak transcription	NHDF-Ad	bronchial
29	chr3:142468400-142529400	Weak transcription	Brain Germinal Matrix	brain
30	chr3:142468600-142484000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:142468600-142525200	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr3:142468800-142481800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr3:142468800-142492000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr3:142468800-142513200	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr3:142469200-142491200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr3:142469600-142483200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr3:142469800-142485600	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr3:142470200-142483600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr3:142470600-142479000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr3:142470600-142486800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr3:142470600-142505800	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr3:142472400-142509800	Weak transcription	HepG2	liver
43	chr3:142475000-142527200	Weak transcription	Brain Cingulate Gyrus	brain
44	chr3:142475200-142498200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr3:142477400-142483400	Weak transcription	Adipose Nuclei	Adipose
46	chr3:142477600-142483800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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