Variant report

Variant	rs17833941
Chromosome Location	chr9:26908821-26908822
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:26907670..26910296-chr9:26959042..26961750,2	K562	blood:
2	chr9:26904433..26907115-chr9:26907974..26909867,2	K562	blood:
3	chr9:26899122..26901033-chr9:26907283..26909966,2	K562	blood:

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10812480	0.84[JPT][hapmap]
rs10812485	0.85[JPT][hapmap]
rs10812490	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10812491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10812494	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10812495	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10812497	0.91[ASN][1000 genomes]
rs10812502	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10812506	0.85[AMR][1000 genomes]
rs10812507	0.81[JPT][hapmap]
rs10812509	1.00[JPT][hapmap];0.80[AMR][1000 genomes]
rs10812510	1.00[JPT][hapmap]
rs10812513	0.85[JPT][hapmap];0.83[AMR][1000 genomes]
rs10812517	1.00[JPT][hapmap]
rs10967545	0.80[EUR][1000 genomes]
rs10967566	0.84[JPT][hapmap]
rs10967581	1.00[CEU][hapmap];0.84[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10967586	0.90[JPT][hapmap]
rs10967597	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10967609	0.84[AMR][1000 genomes]
rs10967611	1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10967612	0.89[AMR][1000 genomes]
rs10967614	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10967621	1.00[JPT][hapmap];0.87[AMR][1000 genomes]
rs10967622	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10967623	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs10967627	1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes]
rs10967630	1.00[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs10967633	1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10967635	1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs10967636	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10967646	0.81[AFR][1000 genomes]
rs10967649	1.00[JPT][hapmap];0.81[EUR][1000 genomes]
rs10967650	1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs10967651	0.83[AMR][1000 genomes]
rs10967652	0.81[JPT][hapmap]
rs10967661	0.84[JPT][hapmap];0.83[AMR][1000 genomes]
rs10967662	0.83[AMR][1000 genomes]
rs10967666	0.83[AMR][1000 genomes]
rs10967668	0.83[AMR][1000 genomes]
rs10967669	0.83[AMR][1000 genomes]
rs10967678	1.00[JPT][hapmap]
rs10967679	0.81[JPT][hapmap]
rs10967681	0.85[JPT][hapmap]
rs10967688	0.95[JPT][hapmap]
rs11534184	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11534185	0.83[AMR][1000 genomes]
rs11555693	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11562224	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12235490	0.87[AMR][1000 genomes]
rs12236404	0.91[AMR][1000 genomes]
rs12236850	0.84[JPT][hapmap];0.81[AMR][1000 genomes]
rs12237867	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs12238035	0.80[EUR][1000 genomes]
rs1336337	1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1414798	0.80[EUR][1000 genomes]
rs1541144	0.81[JPT][hapmap]
rs17760820	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2184738	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3737226	1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3739544	1.00[JPT][hapmap];0.89[AMR][1000 genomes]
rs3739547	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3739548	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3739550	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4621911	0.81[JPT][hapmap]
rs55827505	0.91[AMR][1000 genomes]
rs55860736	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs55870543	0.91[AMR][1000 genomes]
rs56307252	0.83[AMR][1000 genomes]
rs57450012	0.91[AMR][1000 genomes]
rs60841248	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6475945	0.81[JPT][hapmap]
rs6475954	0.81[JPT][hapmap]
rs7018585	0.81[JPT][hapmap]
rs7018943	0.84[JPT][hapmap]
rs7019034	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7019075	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7020010	0.90[JPT][hapmap]
rs7031903	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7031984	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7034888	0.87[AMR][1000 genomes]
rs7034899	0.87[AMR][1000 genomes]
rs7035447	1.00[JPT][hapmap];0.82[YRI][hapmap];0.87[AMR][1000 genomes]
rs7038218	0.84[JPT][hapmap]
rs7042447	0.81[JPT][hapmap]
rs7045339	0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72703105	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72719536	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs72719538	0.87[AMR][1000 genomes]
rs7849248	0.89[JPT][hapmap]
rs7856462	0.81[JPT][hapmap]
rs7857447	1.00[JPT][hapmap];0.83[AMR][1000 genomes]
rs7857466	1.00[CEU][hapmap];1.00[JPT][hapmap];0.80[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7857990	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7860542	0.81[JPT][hapmap]
rs7865952	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7870787	0.90[JPT][hapmap]
rs7871668	0.81[JPT][hapmap]
rs7872496	0.90[JPT][hapmap]
rs7872666	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7873073	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7874940	1.00[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7875068	0.80[JPT][hapmap]
rs7875171	1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes]
rs9644870	0.84[JPT][hapmap]

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	nsv528614	chr9:26893662-27074233	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26892800-26916200	Weak transcription	Small Intestine	intestine
2	chr9:26893000-26916000	Weak transcription	Left Ventricle	heart
3	chr9:26893000-26916000	Weak transcription	Pancreas	Pancrea
4	chr9:26893000-26916200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr9:26893000-26922600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:26893000-26924200	Weak transcription	Esophagus	oesophagus
7	chr9:26893200-26923200	Weak transcription	Right Ventricle	heart
8	chr9:26893400-26914800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr9:26893400-26916000	Weak transcription	Fetal Lung	lung
10	chr9:26893400-26916800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:26893400-26925000	Weak transcription	Stomach Mucosa	stomach
12	chr9:26893400-26936400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr9:26893400-26936400	Weak transcription	Psoas Muscle	Psoas
14	chr9:26893600-26912200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr9:26893600-26912400	Weak transcription	Brain Germinal Matrix	brain
16	chr9:26893600-26915400	Weak transcription	Fetal Brain Female	brain
17	chr9:26893600-26915600	Weak transcription	Fetal Kidney	kidney
18	chr9:26893600-26915800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr9:26893600-26916000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:26893600-26916000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr9:26893600-26916000	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr9:26896600-26915400	Weak transcription	Brain Angular Gyrus	brain
23	chr9:26896800-26915800	Weak transcription	Colonic Mucosa	Colon
24	chr9:26896800-26915800	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr9:26898200-26924400	Weak transcription	Aorta	Aorta
26	chr9:26899200-26921200	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr9:26899400-26914800	Weak transcription	HepG2	liver
28	chr9:26899400-26916200	Weak transcription	NHEK	skin
29	chr9:26900600-26916200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr9:26900800-26930000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr9:26901000-26913600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr9:26901200-26935800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:26901600-26916000	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr9:26901600-26920800	Weak transcription	Gastric	stomach
35	chr9:26902800-26909600	Strong transcription	HSMM	muscle
36	chr9:26902800-26936600	Weak transcription	Spleen	Spleen
37	chr9:26903000-26909200	Strong transcription	A549	lung
38	chr9:26903000-26909800	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr9:26903000-26910800	Strong transcription	Placenta	Placenta
40	chr9:26903000-26927800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:26903000-26929800	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr9:26903000-26935200	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr9:26903200-26928400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr9:26903200-26930000	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr9:26903200-26932600	Strong transcription	Dnd41	blood
46	chr9:26903200-26935200	Strong transcription	Primary monocytes fromperipheralblood	blood
47	chr9:26903600-26909200	Strong transcription	Muscle Satellite Cultured Cells	--
48	chr9:26903600-26910400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr9:26903800-26910600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr9:26903800-26915400	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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