Variant report

Variant	rs12683889
Chromosome Location	chr9:103346605-103346606
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr9:103346587-103346681	A549	lung:	n/a	n/a

Variant related genes	Relation type
RN7SKP87	TF binding region

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs1000477	0.82[JPT][hapmap]
rs10465118	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10465147	0.82[JPT][hapmap]
rs10465148	0.82[JPT][hapmap]
rs10465149	0.82[JPT][hapmap]
rs10512270	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs10512271	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10819773	0.81[JPT][hapmap]
rs10819776	0.82[JPT][hapmap]
rs10819782	0.82[JPT][hapmap]
rs10819785	0.82[JPT][hapmap]
rs10819787	0.82[JPT][hapmap]
rs10819788	0.82[JPT][hapmap]
rs10819789	0.82[JPT][hapmap]
rs10819795	0.88[ASN][1000 genomes]
rs10989078	0.82[JPT][hapmap]
rs10989081	0.82[JPT][hapmap]
rs10989082	0.82[JPT][hapmap]
rs10989085	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10989094	0.82[JPT][hapmap]
rs10989097	0.82[JPT][hapmap]
rs10989103	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10989105	0.82[JPT][hapmap]
rs10989107	1.00[CEU][hapmap]
rs10989111	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10989112	0.82[JPT][hapmap]
rs10989113	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10989114	1.00[CEU][hapmap]
rs10989115	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10989120	0.81[JPT][hapmap]
rs10989123	0.82[JPT][hapmap]
rs10989127	0.82[JPT][hapmap]
rs10989130	0.82[JPT][hapmap]
rs10989131	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs10989144	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs10989145	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs10989146	0.88[JPT][hapmap]
rs10989147	1.00[CEU][hapmap];0.83[GIH][hapmap];0.81[JPT][hapmap]
rs10989150	1.00[CEU][hapmap]
rs10989152	0.91[JPT][hapmap]
rs10989153	0.81[CHD][hapmap];0.92[JPT][hapmap]
rs10989154	1.00[CEU][hapmap];0.83[GIH][hapmap];0.92[JPT][hapmap]
rs10989156	0.92[JPT][hapmap]
rs10989161	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989164	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989167	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989169	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989170	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10989173	0.95[ASN][1000 genomes]
rs10989174	0.89[ASN][1000 genomes]
rs11793014	0.82[JPT][hapmap]
rs12004257	0.82[JPT][hapmap]
rs12056981	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs12235981	0.92[JPT][hapmap]
rs12236071	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs12236970	0.81[CHD][hapmap];0.92[JPT][hapmap]
rs12237481	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs12238560	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs12683122	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs12683548	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs12684438	0.82[JPT][hapmap]
rs12684454	0.82[JPT][hapmap]
rs12685564	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1332598	0.82[JPT][hapmap]
rs16919174	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs16919204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16919211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1930246	0.82[JPT][hapmap]
rs1931140	0.92[JPT][hapmap]
rs2026423	0.82[JPT][hapmap]
rs2069236	0.82[JPT][hapmap]
rs2151106	0.82[JPT][hapmap]
rs2183989	0.82[JPT][hapmap]
rs2183990	0.82[JPT][hapmap]
rs2183991	0.82[JPT][hapmap]
rs2274881	1.00[CEU][hapmap];0.83[GIH][hapmap];0.82[JPT][hapmap]
rs2274882	0.82[JPT][hapmap]
rs28623148	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4454331	0.95[ASN][1000 genomes]
rs55757829	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56290508	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56354846	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7021028	0.92[JPT][hapmap]
rs7028822	0.82[JPT][hapmap]
rs7029001	0.82[JPT][hapmap]
rs7042669	0.82[JPT][hapmap]
rs7046659	0.82[JPT][hapmap]
rs72735197	0.85[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:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103307400-103347800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr9:103327800-103349400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr9:103329600-103360800	Weak transcription	Aorta	Aorta
4	chr9:103329800-103351800	Weak transcription	Ovary	ovary
5	chr9:103330000-103357800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr9:103330400-103351600	Weak transcription	Fetal Stomach	stomach
7	chr9:103330800-103349400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr9:103331600-103360200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr9:103332400-103351600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:103332400-103357600	Weak transcription	Fetal Lung	lung
11	chr9:103333600-103360800	Weak transcription	Fetal Brain Male	brain
12	chr9:103334200-103351000	Strong transcription	HUES64 Cell Line	embryonic stem cell
13	chr9:103334600-103350600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr9:103334800-103350200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr9:103335000-103351000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr9:103336800-103347800	Weak transcription	Brain Germinal Matrix	brain
17	chr9:103337600-103352200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr9:103338600-103348000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr9:103338800-103352200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:103340600-103351800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:103340800-103351400	Weak transcription	NHDF-Ad	bronchial
22	chr9:103341000-103351400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr9:103341800-103349000	Weak transcription	HUVEC	blood vessel
24	chr9:103342600-103350400	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr9:103342800-103351200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
26	chr9:103343000-103349200	Weak transcription	NH-A	brain
27	chr9:103343000-103349600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:103343200-103360600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr9:103344200-103347800	Weak transcription	Brain Hippocampus Middle	brain
30	chr9:103344200-103347800	Weak transcription	Left Ventricle	heart
31	chr9:103344200-103352200	Weak transcription	Brain Angular Gyrus	brain
32	chr9:103344400-103350000	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr9:103344600-103348000	Weak transcription	Brain Anterior Caudate	brain
34	chr9:103344600-103348200	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr9:103344800-103347200	Weak transcription	Fetal Muscle Trunk	muscle
36	chr9:103344800-103347800	Weak transcription	Brain Cingulate Gyrus	brain
37	chr9:103344800-103347800	Weak transcription	Brain Substantia Nigra	brain
38	chr9:103345000-103346800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr9:103345000-103347400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr9:103345000-103349000	Weak transcription	Right Ventricle	heart
41	chr9:103345400-103346800	Enhancers	Fetal Heart	heart
42	chr9:103345400-103348800	Strong transcription	H9 Cell Line	embryonic stem cell
43	chr9:103345600-103347000	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr9:103345600-103349400	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr9:103345800-103347600	Weak transcription	Fetal Muscle Leg	muscle
46	chr9:103345800-103349600	Genic enhancers	HSMMtube	muscle
47	chr9:103345800-103351800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr9:103346000-103349400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:103346200-103359800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr9:103346400-103347600	Strong transcription	HSMM	muscle

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