Variant report

Variant	rs9830778
Chromosome Location	chr3:23881072-23881073
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23877439..23880001-chr3:23880133..23883001,2	K562	blood:
2	chr3:23881008..23882958-chr3:23892400..23894853,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1026407	0.94[CEU][hapmap];0.87[CHB][hapmap];0.88[EUR][1000 genomes]
rs11707828	1.00[CEU][hapmap];0.83[CHB][hapmap];0.97[TSI][hapmap];0.95[EUR][1000 genomes]
rs1471060	0.95[CEU][hapmap];0.83[CHB][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes]
rs1473380	1.00[CEU][hapmap];0.97[TSI][hapmap];0.97[EUR][1000 genomes]
rs1473381	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs4858092	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4858548	0.93[EUR][1000 genomes]
rs4858549	0.92[EUR][1000 genomes]
rs4858552	0.80[JPT][hapmap]
rs4858553	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs6550804	1.00[CEU][hapmap];0.87[CHB][hapmap];0.93[EUR][1000 genomes]
rs6771166	0.88[EUR][1000 genomes]
rs6778155	0.81[JPT][hapmap]
rs6784101	0.96[EUR][1000 genomes]
rs6789735	0.97[EUR][1000 genomes]
rs6794905	0.95[CEU][hapmap];0.90[JPT][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs6807856	0.85[JPT][hapmap]
rs7615640	0.87[EUR][1000 genomes]
rs9869299	0.91[CEU][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834637	chr3:23703928-23886144	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23853000-23882000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:23853000-23887400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:23853200-23893200	Weak transcription	Thymus	Thymus
4	chr3:23853400-23885600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:23855000-23900200	Weak transcription	HSMM	muscle
6	chr3:23857600-23894000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr3:23857600-23900000	Weak transcription	Fetal Muscle Trunk	muscle
8	chr3:23862000-23881400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:23862000-23882000	Weak transcription	Fetal Intestine Large	intestine
10	chr3:23867000-23881400	Weak transcription	HepG2	liver
11	chr3:23868000-23884800	Weak transcription	NHDF-Ad	bronchial
12	chr3:23868000-23897800	Weak transcription	HUVEC	blood vessel
13	chr3:23868200-23881800	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr3:23868200-23883600	Weak transcription	Left Ventricle	heart
15	chr3:23868200-23893000	Weak transcription	Fetal Thymus	thymus
16	chr3:23868600-23881200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr3:23869600-23881400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr3:23871200-23883600	Weak transcription	Ovary	ovary
19	chr3:23871200-23899000	Weak transcription	Pancreas	Pancrea
20	chr3:23871400-23897400	Weak transcription	Primary T cells from cord blood	blood
21	chr3:23872000-23897400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr3:23872400-23881800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr3:23872600-23886800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr3:23873000-23887800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr3:23873800-23881800	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr3:23873800-23893000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr3:23873800-23898000	Weak transcription	NHEK	skin
28	chr3:23874400-23882200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr3:23874400-23888000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr3:23876200-23881400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr3:23876200-23883600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr3:23876800-23882000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr3:23876800-23906800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr3:23877000-23882000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr3:23878200-23881400	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr3:23878200-23881600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr3:23878200-23882000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr3:23878200-23883600	Weak transcription	A549	lung
39	chr3:23878400-23881800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr3:23878400-23882000	Weak transcription	Small Intestine	intestine
41	chr3:23878400-23883200	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr3:23878400-23887800	Weak transcription	Right Ventricle	heart
43	chr3:23878400-23898000	Weak transcription	Liver	Liver
44	chr3:23878600-23881400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr3:23878600-23884800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr3:23878600-23900400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr3:23878800-23881600	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr3:23878800-23882200	Weak transcription	Brain Hippocampus Middle	brain
49	chr3:23878800-23893800	Weak transcription	Fetal Stomach	stomach
50	chr3:23878800-23900200	Weak transcription	Fetal Kidney	kidney

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