Variant report

Variant	rs10989167
Chromosome Location	chr9:103360475-103360476
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:103356597..103359532-chr9:103359671..103361180,2	K562	blood:
2	chr9:103279571..103281078-chr9:103358915..103361806,2	K562	blood:
3	chr9:103350659..103353280-chr9:103360412..103361939,2	K562	blood:
4	chr9:103188502..103190077-chr9:103358977..103360522,2	MCF-7	breast:
5	chr9:103278757..103281071-chr9:103359482..103361806,2	K562	blood:

Variant related genes	Relation type
ENSG00000066697	Chromatin interaction

Extended variants
information (count: 93 )
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];0.84[GIH][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];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.82[YRI][hapmap]
rs10512271	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[YRI][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	1.00[AMR][1000 genomes];0.90[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];0.82[YRI][hapmap]
rs10989094	0.82[JPT][hapmap]
rs10989097	0.82[JPT][hapmap]
rs10989103	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs10989105	0.82[JPT][hapmap]
rs10989107	1.00[CEU][hapmap]
rs10989111	1.00[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs10989112	0.82[JPT][hapmap]
rs10989113	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs10989114	1.00[CEU][hapmap];0.82[YRI][hapmap]
rs10989115	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[YRI][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];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap]
rs10989145	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap]
rs10989146	0.88[JPT][hapmap]
rs10989147	1.00[CEU][hapmap];0.92[GIH][hapmap];0.81[JPT][hapmap];1.00[MEX][hapmap]
rs10989150	1.00[CEU][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap]
rs10989152	0.91[JPT][hapmap]
rs10989153	0.92[JPT][hapmap]
rs10989154	1.00[CEU][hapmap];0.92[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap]
rs10989156	0.92[JPT][hapmap]
rs10989161	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989163	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989164	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10989169	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10989170	0.94[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10989173	0.97[ASN][1000 genomes]
rs10989174	0.89[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11793014	0.82[JPT][hapmap]
rs12004257	0.82[JPT][hapmap]
rs12056981	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.82[YRI][hapmap]
rs12235981	0.92[JPT][hapmap]
rs12236071	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.92[MKK][hapmap];0.82[YRI][hapmap]
rs12236970	0.92[JPT][hapmap]
rs12237481	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs12238560	1.00[CEU][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs12683122	1.00[CEU][hapmap];0.88[GIH][hapmap];0.82[JPT][hapmap];0.82[YRI][hapmap]
rs12683548	1.00[CEU][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap]
rs12683889	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]
rs12684438	0.82[JPT][hapmap]
rs12684454	0.82[JPT][hapmap]
rs12685564	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1332598	0.82[JPT][hapmap]
rs16919174	1.00[CEU][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap]
rs16919204	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16919211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[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];0.92[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap]
rs2274882	0.82[JPT][hapmap]
rs28623148	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4454331	0.97[ASN][1000 genomes]
rs55757829	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56290508	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56354846	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[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	0.87[ASN][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	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
2	nsv893624	chr9:103351931-103416553	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	3 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	chr9:103329600-103360800	Weak transcription	Aorta	Aorta
2	chr9:103333600-103360800	Weak transcription	Fetal Brain Male	brain
3	chr9:103343200-103360600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr9:103348600-103361000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:103348800-103360600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:103349600-103360800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr9:103350600-103360800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr9:103351000-103360600	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr9:103351600-103360600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:103353400-103360600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr9:103354000-103360800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr9:103354400-103360800	Weak transcription	Brain Substantia Nigra	brain
13	chr9:103354600-103360800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr9:103358000-103360600	Weak transcription	Brain Anterior Caudate	brain
15	chr9:103358000-103360600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr9:103358000-103360600	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr9:103358000-103360800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr9:103358000-103360800	Weak transcription	Fetal Brain Female	brain
19	chr9:103358000-103360800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr9:103358000-103360800	Weak transcription	HSMMtube	muscle
21	chr9:103358400-103360600	Weak transcription	Brain Angular Gyrus	brain
22	chr9:103358400-103360800	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:103359200-103361400	Enhancers	Fetal Heart	heart
24	chr9:103359400-103360800	Enhancers	Brain Germinal Matrix	brain
25	chr9:103359600-103360800	Enhancers	Brain Hippocampus Middle	brain
26	chr9:103359800-103360600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr9:103359800-103360600	Bivalent Enhancer	HUVEC	blood vessel
28	chr9:103359800-103360800	Weak transcription	Left Ventricle	heart
29	chr9:103360000-103360800	Enhancers	H1 Cell Line	embryonic stem cell
30	chr9:103360200-103360600	Enhancers	H9 Cell Line	embryonic stem cell
31	chr9:103360200-103360600	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr9:103360200-103361800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
33	chr9:103360400-103360600	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
34	chr9:103360400-103360600	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
35	chr9:103360400-103360600	Enhancers	Primary T helper cells fromperipheralblood	blood
36	chr9:103360400-103360600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr9:103360400-103360600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr9:103360400-103360600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr9:103360400-103360600	Enhancers	Brain Inferior Temporal Lobe	brain
40	chr9:103360400-103360600	Flanking Active TSS	A549	lung
41	chr9:103360400-103360600	Enhancers	K562	blood
42	chr9:103360400-103360800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
43	chr9:103360400-103360800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
44	chr9:103360400-103360800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
45	chr9:103360400-103360800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr9:103360400-103360800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
47	chr9:103360400-103360800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr9:103360400-103360800	Enhancers	Duodenum Mucosa	Duodenum
49	chr9:103360400-103360800	Enhancers	Fetal Lung	lung
50	chr9:103360400-103360800	Enhancers	Stomach Smooth Muscle	stomach

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