Variant report

Variant	rs9877218
Chromosome Location	chr3:79539862-79539863
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10154835	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11127644	0.81[EUR][1000 genomes]
rs28441979	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28653275	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4264688	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4444671	0.84[EUR][1000 genomes]
rs4564923	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60487146	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62257608	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6548618	0.83[JPT][hapmap]
rs73129039	0.88[EUR][1000 genomes]
rs7616713	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7622888	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7628507	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7640018	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7647105	0.89[CEU][hapmap]
rs9817158	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9859514	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9873314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9880584	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9882489	0.89[CEU][hapmap]

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	esv3381015	chr3:79425678-79545174	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv998248	chr3:79426615-79554963	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv834747	chr3:79441211-79591923	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79539000-79540400	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr3:79539000-79540400	Enhancers	Fetal Lung	lung
3	chr3:79539000-79541200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr3:79539200-79541200	Enhancers	Fetal Stomach	stomach
5	chr3:79539400-79540000	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr3:79539400-79540000	Enhancers	Aorta	Aorta
7	chr3:79539400-79540000	Enhancers	Fetal Brain Female	brain
8	chr3:79539400-79540000	Enhancers	Pancreas	Pancrea
9	chr3:79539400-79540000	Flanking Active TSS	Rectal Smooth Muscle	rectum
10	chr3:79539400-79540400	Flanking Active TSS	Adipose Nuclei	Adipose
11	chr3:79539400-79540600	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr3:79539400-79540600	Enhancers	Fetal Muscle Leg	muscle
13	chr3:79539400-79540600	Active TSS	Stomach Smooth Muscle	stomach
14	chr3:79539400-79540600	Enhancers	NHEK	skin
15	chr3:79539400-79540800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:79539400-79540800	Enhancers	Psoas Muscle	Psoas
17	chr3:79539400-79540800	Enhancers	NH-A	brain
18	chr3:79539400-79541200	Enhancers	Brain Germinal Matrix	brain
19	chr3:79539400-79541200	Enhancers	Colon Smooth Muscle	Colon
20	chr3:79539600-79540000	Enhancers	H1 Cell Line	embryonic stem cell
21	chr3:79539600-79540000	Enhancers	Brain Inferior Temporal Lobe	brain
22	chr3:79539600-79540000	Flanking Active TSS	Ovary	ovary
23	chr3:79539600-79540000	Active TSS	Right Atrium	heart
24	chr3:79539600-79540000	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr3:79539600-79540000	Enhancers	HMEC	breast
26	chr3:79539600-79540400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr3:79539600-79540600	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr3:79539600-79540600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:79539600-79540600	Enhancers	Fetal Heart	heart
30	chr3:79539600-79540800	Enhancers	HUES64 Cell Line	embryonic stem cell
31	chr3:79539600-79540800	Enhancers	Skeletal Muscle Female	skeletal muscle
32	chr3:79539800-79540000	Enhancers	Brain Angular Gyrus	brain
33	chr3:79539800-79540000	Enhancers	Brain Hippocampus Middle	brain
34	chr3:79539800-79540200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:79539800-79540200	Weak transcription	Fetal Brain Male	brain
36	chr3:79539800-79540400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr3:79539800-79540400	Active TSS	NHDF-Ad	bronchial
38	chr3:79539800-79540600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:79539800-79540600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr3:79539800-79540800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:79539800-79540800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr3:79539800-79540800	Enhancers	iPS-15b Cell Line	embryonic stem cell
43	chr3:79539800-79540800	Enhancers	Duodenum Smooth Muscle	Duodenum

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