Variant report

Variant	rs7029830
Chromosome Location	chr9:116681888-116681889
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:116637842..116639992-chr9:116680566..116683236,2	MCF-7	breast:
2	chr9:116672204..116673928-chr9:116680412..116682576,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157657	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10122390	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10123606	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10448275	0.82[CHB][hapmap]
rs10513222	0.89[CEU][hapmap];0.87[CHB][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10513223	0.89[CEU][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes]
rs10817532	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10817539	0.82[CHB][hapmap]
rs10982007	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12343628	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13290326	0.88[ASN][1000 genomes]
rs1330169	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1888161	0.95[CHB][hapmap]
rs2183364	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2418259	0.89[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2900568	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2900569	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35189176	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4979295	0.85[CEU][hapmap]
rs4979296	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4979297	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4979298	0.89[CEU][hapmap]
rs7026176	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7038501	0.85[CEU][hapmap]
rs7046776	0.81[CHB][hapmap]
rs7047895	0.90[CEU][hapmap];0.95[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7852787	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7853127	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7855811	0.82[CEU][hapmap]
rs7867998	0.82[CHB][hapmap]
rs871806	0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs871808	0.86[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs882980	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs944180	0.90[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9942970	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9942975	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.89[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	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116659400-116685400	Weak transcription	A549	lung
2	chr9:116666400-116683800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr9:116666600-116683000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:116667400-116684400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr9:116669400-116683000	Weak transcription	Osteobl	bone
6	chr9:116669600-116690400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr9:116669800-116683600	Weak transcription	HUVEC	blood vessel
8	chr9:116672000-116682000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr9:116672600-116684800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr9:116674600-116682000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr9:116674600-116690000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr9:116675200-116684600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr9:116675400-116683200	Weak transcription	NHDF-Ad	bronchial
14	chr9:116675400-116684800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr9:116675600-116682000	Weak transcription	Brain Anterior Caudate	brain
16	chr9:116675600-116684000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr9:116675800-116683400	Weak transcription	NHLF	lung
18	chr9:116675800-116683600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr9:116675800-116684600	Weak transcription	Esophagus	oesophagus
20	chr9:116675800-116686000	Weak transcription	Colonic Mucosa	Colon
21	chr9:116675800-116691800	Weak transcription	Lung	lung
22	chr9:116676000-116682400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:116676000-116683200	Weak transcription	Gastric	stomach
24	chr9:116676000-116684800	Weak transcription	Fetal Kidney	kidney
25	chr9:116676200-116688000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:116676400-116684200	Weak transcription	HSMMtube	muscle
27	chr9:116676400-116685000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr9:116676600-116682000	Weak transcription	Liver	Liver
29	chr9:116677600-116683400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr9:116679000-116682000	Weak transcription	Fetal Intestine Small	intestine
31	chr9:116679200-116684400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr9:116679200-116689600	Weak transcription	HSMM	muscle
33	chr9:116679400-116686800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr9:116679400-116691600	Weak transcription	Pancreas	Pancrea
35	chr9:116680400-116682600	Enhancers	Fetal Brain Female	brain
36	chr9:116680600-116682800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:116680800-116682800	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr9:116680800-116683000	Enhancers	Fetal Brain Male	brain
39	chr9:116681000-116682200	Enhancers	Brain Angular Gyrus	brain
40	chr9:116681000-116682400	Enhancers	Aorta	Aorta
41	chr9:116681000-116682600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr9:116681000-116682600	Enhancers	Ovary	ovary
43	chr9:116681000-116682600	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr9:116681000-116683400	Enhancers	Fetal Muscle Leg	muscle
45	chr9:116681000-116683400	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr9:116681000-116684000	Enhancers	Breast Myoepithelial Primary Cells	Breast
47	chr9:116681200-116682000	Enhancers	Adipose Nuclei	Adipose
48	chr9:116681200-116682000	Enhancers	Colon Smooth Muscle	Colon
49	chr9:116681200-116682200	Enhancers	Brain Inferior Temporal Lobe	brain
50	chr9:116681200-116683800	Enhancers	Psoas Muscle	Psoas

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