Variant report

Variant	rs883462
Chromosome Location	chr9:115595615-115595616
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 119 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:113)

rs_ID	r²[population]
rs10117017	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10117709	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10122712	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.88[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10513168	0.81[CEU][hapmap]
rs10513169	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs10732374	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs10733595	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10739371	0.89[CHB][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs10759587	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10759588	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs10759592	0.81[JPT][hapmap]
rs10759599	0.81[JPT][hapmap]
rs10759600	0.81[JPT][hapmap]
rs10759601	0.81[JPT][hapmap]
rs10817391	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817392	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10817395	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10817396	1.00[CHB][hapmap];0.90[JPT][hapmap];0.97[YRI][hapmap];0.94[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs10817397	0.81[JPT][hapmap]
rs10817399	0.81[JPT][hapmap]
rs10817400	0.81[JPT][hapmap]
rs10981513	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981515	0.85[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10981516	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981521	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981522	0.82[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10981530	0.83[EUR][1000 genomes]
rs10981531	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11791125	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11793016	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418408	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1475292	0.81[JPT][hapmap]
rs1539340	0.81[JPT][hapmap]
rs1539345	0.99[ASN][1000 genomes]
rs1573055	0.95[EUR][1000 genomes]
rs1573056	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs16917440	1.00[CEU][hapmap]
rs17742501	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17742994	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17743418	0.90[CEU][hapmap];0.96[EUR][1000 genomes]
rs17743824	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs17821593	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs1970527	0.81[JPT][hapmap]
rs2000204	0.89[ASN][1000 genomes]
rs2096186	0.84[ASN][1000 genomes]
rs2096187	0.80[ASN][1000 genomes]
rs2153839	0.91[CHB][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs2185767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796024	0.91[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs41280189	0.93[EUR][1000 genomes]
rs4276760	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4366151	0.81[JPT][hapmap]
rs4574920	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs4978504	0.90[ASN][1000 genomes]
rs4979158	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4979162	0.99[ASN][1000 genomes]
rs4979163	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.96[ASN][1000 genomes]
rs4979164	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.96[ASN][1000 genomes]
rs4979166	0.89[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs4979168	0.81[JPT][hapmap]
rs57546880	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57672123	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58247585	0.93[EUR][1000 genomes]
rs59645636	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60989307	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61626147	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62576365	0.81[EUR][1000 genomes]
rs62576366	0.81[EUR][1000 genomes]
rs62576369	0.81[EUR][1000 genomes]
rs62576370	0.81[EUR][1000 genomes]
rs62576371	0.81[EUR][1000 genomes]
rs62576383	0.81[EUR][1000 genomes]
rs62576384	0.81[EUR][1000 genomes]
rs62576385	0.87[EUR][1000 genomes]
rs62576386	0.88[EUR][1000 genomes]
rs62576389	0.88[EUR][1000 genomes]
rs62576390	0.88[EUR][1000 genomes]
rs62576391	0.88[EUR][1000 genomes]
rs62576392	0.82[EUR][1000 genomes]
rs62576393	0.82[EUR][1000 genomes]
rs62576394	0.88[EUR][1000 genomes]
rs62576395	0.88[EUR][1000 genomes]
rs62576396	0.88[EUR][1000 genomes]
rs62576405	0.88[EUR][1000 genomes]
rs62576406	0.88[EUR][1000 genomes]
rs62576407	0.88[EUR][1000 genomes]
rs62576409	0.88[EUR][1000 genomes]
rs62576410	0.88[EUR][1000 genomes]
rs62576411	0.88[EUR][1000 genomes]
rs62576412	0.91[EUR][1000 genomes]
rs62576413	0.96[EUR][1000 genomes]
rs62576414	0.96[EUR][1000 genomes]
rs62576415	0.96[EUR][1000 genomes]
rs62576438	0.83[EUR][1000 genomes]
rs6477960	0.88[ASN][1000 genomes]
rs6477961	0.81[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7030460	0.91[ASN][1000 genomes]
rs7032401	0.89[ASN][1000 genomes]
rs7467129	0.81[EUR][1000 genomes]
rs7856199	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7871799	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs787282	0.87[ASN][1000 genomes]
rs787283	0.90[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs787288	0.91[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs7873644	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs870078	0.91[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs912661	0.81[JPT][hapmap]
rs9299210	0.94[ASN][1000 genomes]
rs9299211	0.81[JPT][hapmap]
rs9299212	0.81[JPT][hapmap]
rs999018	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv1038306	chr9:115379305-115595695	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv540194	chr9:115379305-115595695	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv893733	chr9:115397206-115712068	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	esv2422302	chr9:115550339-115656433	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115555800-115597400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
2	chr9:115559400-115598400	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:115565000-115600800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr9:115565600-115600800	Weak transcription	HMEC	breast
5	chr9:115566800-115598000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr9:115570600-115608400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr9:115573200-115598400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr9:115573400-115598800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:115573600-115598400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr9:115573600-115607800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr9:115574000-115598600	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr9:115575000-115600800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr9:115577600-115630400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr9:115578800-115596200	Weak transcription	Gastric	stomach
15	chr9:115579000-115600800	Weak transcription	Fetal Brain Male	brain
16	chr9:115580200-115608400	Weak transcription	Fetal Kidney	kidney
17	chr9:115580600-115601800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr9:115580800-115596400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr9:115581200-115598600	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr9:115581200-115599200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr9:115582200-115608600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr9:115582400-115598200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr9:115582400-115598400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr9:115582400-115600600	Weak transcription	HSMM	muscle
25	chr9:115582400-115608600	Weak transcription	NHLF	lung
26	chr9:115582400-115609000	Weak transcription	NHDF-Ad	bronchial
27	chr9:115582400-115630000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr9:115582600-115598600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr9:115583400-115598200	Weak transcription	HUES48 Cell Line	embryonic stem cell
30	chr9:115583400-115598200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr9:115583600-115598400	Weak transcription	NHEK	skin
32	chr9:115584400-115608800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr9:115585000-115596000	Weak transcription	Brain Angular Gyrus	brain
34	chr9:115586400-115598000	Weak transcription	Brain Cingulate Gyrus	brain
35	chr9:115587000-115598200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:115587200-115598600	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr9:115591200-115606800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr9:115591400-115623200	Weak transcription	Fetal Heart	heart
39	chr9:115592400-115600000	Weak transcription	Dnd41	blood
40	chr9:115592600-115607200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr9:115593000-115596400	Strong transcription	Fetal Intestine Large	intestine
42	chr9:115593200-115597200	Strong transcription	Fetal Muscle Leg	muscle
43	chr9:115593200-115598200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr9:115593200-115611000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr9:115593400-115602600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr9:115593600-115599600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr9:115593600-115607200	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr9:115593800-115596800	Strong transcription	Fetal Muscle Trunk	muscle
49	chr9:115593800-115598000	Weak transcription	Primary T helper cells PMA-I stimulated	--
50	chr9:115593800-115599000	Weak transcription	Primary B cells from cord blood	blood

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