Variant report

Variant	rs13099820
Chromosome Location	chr3:69084673-69084674
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs13063094	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13090606	0.81[ASN][1000 genomes]
rs2009602	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2271118	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2271120	0.86[EUR][1000 genomes]
rs2271122	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2279936	0.84[EUR][1000 genomes]
rs2292199	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35718539	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3755717	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3772979	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3821562	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3853157	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56156415	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58950441	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6549162	0.81[EUR][1000 genomes]
rs6549181	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6775065	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6777032	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6782474	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6807701	0.81[EUR][1000 genomes]
rs714300	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7615341	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9813514	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9826616	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[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	nsv876933	chr3:69059023-69227379	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69063400-69100200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:69064000-69098600	Weak transcription	Hela-S3	cervix
3	chr3:69066000-69086400	Strong transcription	HSMM	muscle
4	chr3:69066000-69095800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:69066000-69096400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:69066400-69096800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr3:69066600-69099000	Strong transcription	Placenta	Placenta
8	chr3:69067400-69098200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr3:69067600-69090800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr3:69069200-69099000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr3:69069400-69097800	Strong transcription	Primary neutrophils fromperipheralblood	blood
12	chr3:69070200-69096400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:69070400-69098000	Strong transcription	Rectal Mucosa Donor 31	rectum
14	chr3:69070400-69098400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr3:69070600-69089600	Strong transcription	Primary T helper cells PMA-I stimulated	--
16	chr3:69070600-69095800	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr3:69070600-69097800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:69071000-69090200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr3:69071000-69098400	Strong transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:69071000-69098600	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr3:69071200-69098200	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr3:69072200-69090000	Strong transcription	Duodenum Smooth Muscle	Duodenum
23	chr3:69072200-69096200	Strong transcription	Liver	Liver
24	chr3:69072200-69098200	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr3:69072400-69090400	Strong transcription	Adipose Nuclei	Adipose
26	chr3:69072400-69096400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr3:69072400-69097200	Strong transcription	Primary B cells from peripheral blood	blood
28	chr3:69072400-69098000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
29	chr3:69072600-69084800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr3:69072600-69097400	Strong transcription	Skeletal Muscle Female	skeletal muscle
31	chr3:69072600-69097800	Strong transcription	Primary T cells fromperipheralblood	blood
32	chr3:69072600-69098600	Strong transcription	Fetal Intestine Large	intestine
33	chr3:69072800-69097200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr3:69073400-69094200	Strong transcription	Primary hematopoietic stem cells	blood
35	chr3:69073600-69089800	Strong transcription	Fetal Thymus	thymus
36	chr3:69073600-69096400	Strong transcription	Duodenum Mucosa	Duodenum
37	chr3:69073600-69099200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:69073800-69086200	Strong transcription	Fetal Lung	lung
39	chr3:69074000-69088600	Strong transcription	GM12878-XiMat	blood
40	chr3:69074000-69090400	Strong transcription	Fetal Muscle Trunk	muscle
41	chr3:69074400-69097600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr3:69074600-69100200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr3:69075000-69096800	Weak transcription	Fetal Heart	heart
44	chr3:69075600-69095000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr3:69076200-69096400	Strong transcription	Dnd41	blood
46	chr3:69076400-69089800	Strong transcription	Primary T cells from cord blood	blood
47	chr3:69076600-69090600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr3:69076800-69090000	Strong transcription	Primary T helper naive cells from peripheral blood	blood
49	chr3:69077000-69084800	Strong transcription	HMEC	breast
50	chr3:69077400-69096400	Weak transcription	iPS-15b Cell Line	embryonic stem cell

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