Variant report

Variant	rs2175258
Chromosome Location	chr9:15434792-15434793
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10081655	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10115540	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10481556	0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10733292	0.82[ASN][1000 genomes]
rs10738392	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10756663	0.88[EUR][1000 genomes]
rs10756664	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10756665	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10756667	0.91[EUR][1000 genomes]
rs10756668	0.84[EUR][1000 genomes]
rs10756669	0.91[EUR][1000 genomes]
rs1123038	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1976599	1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1983207	0.83[EUR][1000 genomes]
rs2136710	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2382529	0.86[EUR][1000 genomes]
rs2737829	0.82[EUR][1000 genomes]
rs2737831	0.80[EUR][1000 genomes]
rs2737835	0.82[EUR][1000 genomes]
rs2737842	0.81[EUR][1000 genomes]
rs4741498	0.86[EUR][1000 genomes]
rs4741500	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4741503	0.91[EUR][1000 genomes]
rs4741504	0.91[EUR][1000 genomes]
rs4741506	0.90[EUR][1000 genomes]
rs58972486	0.82[AFR][1000 genomes]
rs6474916	0.82[ASN][1000 genomes]
rs6474918	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6474923	0.91[EUR][1000 genomes]
rs7023290	0.93[EUR][1000 genomes]
rs7026970	0.93[EUR][1000 genomes]
rs7029985	0.85[EUR][1000 genomes]
rs7034447	0.91[EUR][1000 genomes]
rs7040353	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7042165	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7046713	0.91[EUR][1000 genomes]
rs7470323	0.92[EUR][1000 genomes]
rs9650683	0.91[EUR][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	chr9:15423600-15439000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:15424000-15443400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr9:15424000-15443600	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr9:15425000-15437000	Strong transcription	HUES48 Cell Line	embryonic stem cell
5	chr9:15425400-15439000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:15426200-15441800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr9:15426400-15435400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr9:15426400-15436000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr9:15426400-15439000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:15426400-15439800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:15426400-15441800	Weak transcription	Spleen	Spleen
12	chr9:15426400-15442800	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr9:15426400-15443600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:15426400-15443600	Weak transcription	Gastric	stomach
15	chr9:15426400-15468200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr9:15426600-15442400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr9:15426600-15443400	Weak transcription	Fetal Heart	heart
18	chr9:15427000-15436000	Weak transcription	Fetal Brain Female	brain
19	chr9:15427000-15443400	Weak transcription	NHEK	skin
20	chr9:15431000-15437600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr9:15431000-15439000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
22	chr9:15431200-15439200	Strong transcription	HepG2	liver
23	chr9:15431400-15435200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:15431400-15436000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr9:15431400-15439800	Weak transcription	Hela-S3	cervix
26	chr9:15431400-15441800	Weak transcription	Lung	lung
27	chr9:15431400-15442400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr9:15431400-15442800	Weak transcription	Brain Angular Gyrus	brain
29	chr9:15431400-15443400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
30	chr9:15431400-15443400	Weak transcription	Pancreas	Pancrea
31	chr9:15431400-15443600	Weak transcription	Aorta	Aorta
32	chr9:15431400-15443600	Weak transcription	Brain Cingulate Gyrus	brain
33	chr9:15431400-15443600	Weak transcription	Esophagus	oesophagus
34	chr9:15431400-15445800	Weak transcription	Right Ventricle	heart
35	chr9:15431400-15446000	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr9:15431400-15447800	Weak transcription	Psoas Muscle	Psoas
37	chr9:15431600-15443400	Weak transcription	Stomach Mucosa	stomach
38	chr9:15432200-15438800	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr9:15432200-15443600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr9:15432600-15436600	Strong transcription	HSMM	muscle
41	chr9:15432600-15437400	Strong transcription	HUES6 Cell Line	embryonic stem cell
42	chr9:15432800-15435600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr9:15432800-15438400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
44	chr9:15433000-15435200	Strong transcription	NHLF	lung
45	chr9:15433000-15435600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr9:15433000-15437000	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr9:15433000-15438000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
48	chr9:15433000-15438800	Strong transcription	Dnd41	blood
49	chr9:15433000-15440600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr9:15433000-15440600	Strong transcription	Fetal Intestine Large	intestine

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