Variant report

Variant	rs4979298
Chromosome Location	chr9:116684240-116684241
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10119978	0.95[CHB][hapmap];0.85[CHD][hapmap];0.84[GIH][hapmap]
rs10120883	0.85[CEU][hapmap]
rs10122390	0.89[CEU][hapmap]
rs10448276	1.00[CHB][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes]
rs10513222	1.00[CEU][hapmap];0.90[TSI][hapmap];0.85[EUR][1000 genomes]
rs10739396	0.95[CHB][hapmap];0.85[CHD][hapmap];0.82[GIH][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes]
rs10759664	0.95[CHB][hapmap];0.82[CHD][hapmap];0.89[GIH][hapmap]
rs10759665	0.95[CHB][hapmap]
rs10759666	0.95[CHB][hapmap]
rs10817531	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10817532	0.89[CEU][hapmap]
rs10817535	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10982007	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs10982017	0.84[GIH][hapmap]
rs12343628	0.81[EUR][1000 genomes]
rs12551141	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1330166	0.95[CHB][hapmap];0.85[CHD][hapmap];0.91[GIH][hapmap]
rs1330169	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1536962	0.95[CHB][hapmap]
rs1536965	0.95[CHB][hapmap]
rs1536966	0.95[CHB][hapmap]
rs1544102	0.87[GIH][hapmap]
rs2026143	0.95[CHB][hapmap]
rs2065184	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2183364	0.96[CEU][hapmap];0.84[EUR][1000 genomes]
rs2418259	1.00[CEU][hapmap];0.93[TSI][hapmap];0.83[YRI][hapmap];0.81[EUR][1000 genomes]
rs2418260	0.95[CHB][hapmap];0.82[CHD][hapmap];0.80[GIH][hapmap]
rs2900569	0.89[CEU][hapmap]
rs2900570	0.95[CHB][hapmap];0.82[CHD][hapmap];0.80[GIH][hapmap]
rs2900571	0.95[CHB][hapmap]
rs35381898	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4979294	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4979295	0.96[CEU][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4979297	0.89[CEU][hapmap]
rs4979307	0.95[CHB][hapmap]
rs6478045	0.89[EUR][1000 genomes]
rs6478046	0.87[EUR][1000 genomes]
rs6478047	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7026176	0.85[CEU][hapmap]
rs7029830	0.89[CEU][hapmap]
rs7032101	0.95[CHB][hapmap]
rs7038501	0.96[CEU][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7047895	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs7852787	0.89[CEU][hapmap]
rs7853127	0.89[CEU][hapmap]
rs7855811	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs7869027	0.95[CHB][hapmap]
rs814680	0.84[GIH][hapmap]
rs814696	0.89[GIH][hapmap]
rs882980	1.00[CEU][hapmap];0.93[TSI][hapmap];0.85[EUR][1000 genomes]
rs944180	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs9942970	0.81[EUR][1000 genomes]
rs9942975	1.00[CEU][hapmap];0.93[TSI][hapmap];0.81[EUR][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:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116659400-116685400	Weak transcription	A549	lung
2	chr9:116667400-116684400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr9:116669600-116690400	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr9:116672600-116684800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr9:116674600-116690000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr9:116675200-116684600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr9:116675400-116684800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr9:116675800-116684600	Weak transcription	Esophagus	oesophagus
9	chr9:116675800-116686000	Weak transcription	Colonic Mucosa	Colon
10	chr9:116675800-116691800	Weak transcription	Lung	lung
11	chr9:116676000-116684800	Weak transcription	Fetal Kidney	kidney
12	chr9:116676200-116688000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr9:116676400-116685000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr9:116679200-116684400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr9:116679200-116689600	Weak transcription	HSMM	muscle
16	chr9:116679400-116686800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:116679400-116691600	Weak transcription	Pancreas	Pancrea
18	chr9:116682000-116684800	Weak transcription	Fetal Muscle Trunk	muscle
19	chr9:116682400-116684400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:116682400-116684600	Weak transcription	Spleen	Spleen
21	chr9:116682400-116692000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr9:116683000-116684400	Enhancers	Osteobl	bone
23	chr9:116683200-116684400	Weak transcription	Liver	Liver
24	chr9:116683800-116684800	Weak transcription	Fetal Stomach	stomach
25	chr9:116684000-116684800	Enhancers	NHLF	lung
26	chr9:116684200-116684400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr9:116684200-116684400	Enhancers	HSMMtube	muscle
28	chr9:116684200-116688000	Weak transcription	HUVEC	blood vessel

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