Variant report

Variant	rs10733292
Chromosome Location	chr9:15434112-15434113
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RUNX3	chr9:15433617-15434173	GM12878	blood:	n/a	n/a
2	RUNX3	chr9:15433623-15434163	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
RNU6-319P	TF binding region

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10081655	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs10115540	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10116201	0.94[AFR][1000 genomes]
rs10117968	0.94[CHB][hapmap]
rs1033056	0.81[CHB][hapmap]
rs1058252	0.93[AMR][1000 genomes]
rs10738392	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs10738393	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10738395	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10738397	0.89[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10756664	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10756665	1.00[ASN][1000 genomes]
rs10756666	0.89[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10756667	0.86[ASN][1000 genomes]
rs10756668	0.81[ASN][1000 genomes]
rs10756669	0.86[ASN][1000 genomes]
rs10962036	0.83[ASN][1000 genomes]
rs1123038	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12093	1.00[CEU][hapmap];0.94[JPT][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1397214	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs1397215	0.87[CHB][hapmap];0.82[JPT][hapmap]
rs1976599	0.94[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs2136710	0.82[ASN][1000 genomes]
rs2175258	0.82[ASN][1000 genomes]
rs2175259	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs2665504	1.00[CEU][hapmap];0.80[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2737829	0.81[CHB][hapmap];0.89[JPT][hapmap]
rs2737835	0.81[JPT][hapmap]
rs2737842	0.81[CHB][hapmap];0.94[JPT][hapmap]
rs4741500	1.00[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs4741501	1.00[JPT][hapmap]
rs4741503	0.86[ASN][1000 genomes]
rs4741504	0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4741505	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs4741506	0.87[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4741507	0.94[JPT][hapmap]
rs4741508	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs6474915	0.88[CHB][hapmap];0.80[JPT][hapmap]
rs6474916	0.81[CEU][hapmap];0.94[CHB][hapmap];0.89[JPT][hapmap]
rs6474918	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6474923	0.86[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs7021042	0.89[JPT][hapmap]
rs7023290	0.84[ASN][1000 genomes]
rs7026910	0.89[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7026970	0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7040353	0.95[ASN][1000 genomes]
rs7042165	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs7046713	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs7470309	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7470323	0.88[ASN][1000 genomes]
rs7857850	0.87[ASN][1000 genomes]
rs907075	0.85[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs907076	0.89[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9650682	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs9650683	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats 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	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1030287	chr9:15332709-15458001	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv831520	chr9:15404866-15444447	Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
7	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 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	chr9:15423600-15434400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:15423600-15439000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr9:15424000-15443400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr9:15424000-15443600	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr9:15425000-15437000	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr9:15425400-15439000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:15426200-15441800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:15426400-15435400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:15426400-15436000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:15426400-15439000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:15426400-15439800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr9:15426400-15441800	Weak transcription	Spleen	Spleen
13	chr9:15426400-15442800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:15426400-15443600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr9:15426400-15443600	Weak transcription	Gastric	stomach
16	chr9:15426400-15468200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr9:15426600-15442400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr9:15426600-15443400	Weak transcription	Fetal Heart	heart
19	chr9:15426800-15434200	Weak transcription	Fetal Brain Male	brain
20	chr9:15427000-15436000	Weak transcription	Fetal Brain Female	brain
21	chr9:15427000-15443400	Weak transcription	NHEK	skin
22	chr9:15431000-15437600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr9:15431000-15439000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr9:15431200-15439200	Strong transcription	HepG2	liver
25	chr9:15431400-15434400	Weak transcription	Brain Germinal Matrix	brain
26	chr9:15431400-15435200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr9:15431400-15436000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr9:15431400-15439800	Weak transcription	Hela-S3	cervix
29	chr9:15431400-15441800	Weak transcription	Lung	lung
30	chr9:15431400-15442400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr9:15431400-15442800	Weak transcription	Brain Angular Gyrus	brain
32	chr9:15431400-15443400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr9:15431400-15443400	Weak transcription	Pancreas	Pancrea
34	chr9:15431400-15443600	Weak transcription	Aorta	Aorta
35	chr9:15431400-15443600	Weak transcription	Brain Cingulate Gyrus	brain
36	chr9:15431400-15443600	Weak transcription	Esophagus	oesophagus
37	chr9:15431400-15445800	Weak transcription	Right Ventricle	heart
38	chr9:15431400-15446000	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr9:15431400-15447800	Weak transcription	Psoas Muscle	Psoas
40	chr9:15431600-15434400	Strong transcription	K562	blood
41	chr9:15431600-15443400	Weak transcription	Stomach Mucosa	stomach
42	chr9:15431800-15434400	Weak transcription	Fetal Intestine Small	intestine
43	chr9:15432200-15438800	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr9:15432200-15443600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
45	chr9:15432600-15436600	Strong transcription	HSMM	muscle
46	chr9:15432600-15437400	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr9:15432800-15435600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr9:15432800-15438400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
49	chr9:15433000-15434400	Strong transcription	Brain Hippocampus Middle	brain
50	chr9:15433000-15435200	Strong transcription	NHLF	lung

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