Variant report

Variant	rs10081655
Chromosome Location	chr9:15425015-15425016
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:56083086..56085615-chr9:15422777..15425325,2	MCF-7	breast:
2	chr9:15306135..15309581-chr9:15420818..15425516,6	MCF-7	breast:
3	chr9:15420595..15424773-chr9:15424796..15433036,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164975	Chromatin interaction
ENSG00000136450	Chromatin interaction
ENSG00000155158	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10115540	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10117968	0.94[CHB][hapmap]
rs1033056	0.81[CHB][hapmap]
rs10481556	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10733292	1.00[CHB][hapmap];0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs10738392	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10738393	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10738395	0.81[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10738397	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10756663	0.86[EUR][1000 genomes]
rs10756664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10756665	0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10756666	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs10756667	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10756668	0.82[EUR][1000 genomes]
rs10756669	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1123038	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12093	0.94[JPT][hapmap]
rs1397214	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs1397215	1.00[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs1976599	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1983207	0.81[EUR][1000 genomes]
rs2136710	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2175258	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2175259	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs2382529	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2665504	0.80[CHB][hapmap];1.00[JPT][hapmap]
rs2737829	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];0.81[EUR][1000 genomes]
rs2737831	0.82[EUR][1000 genomes]
rs2737835	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2737837	0.91[AMR][1000 genomes]
rs2737842	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes]
rs4741498	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4741500	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4741501	1.00[JPT][hapmap]
rs4741503	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4741504	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4741505	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs4741506	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4741507	0.88[JPT][hapmap]
rs4741508	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs6474915	0.88[CHB][hapmap]
rs6474916	0.94[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs6474918	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6474923	0.90[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7021042	0.94[JPT][hapmap]
rs7023290	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7026910	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7026970	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7029985	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7034447	0.90[EUR][1000 genomes]
rs7040353	0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7042165	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7046713	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7470323	0.90[EUR][1000 genomes]
rs907075	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs907076	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs9650682	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs9650683	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[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	chr9:15423400-15425200	Weak transcription	Spleen	Spleen
2	chr9:15423600-15425200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr9:15423600-15434400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:15423600-15439000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr9:15424000-15425200	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr9:15424000-15425200	Weak transcription	Esophagus	oesophagus
7	chr9:15424000-15425200	Weak transcription	Gastric	stomach
8	chr9:15424000-15425200	Weak transcription	Pancreas	Pancrea
9	chr9:15424000-15425400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
10	chr9:15424000-15425600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:15424000-15427600	Genic enhancers	Primary B cells from peripheral blood	blood
12	chr9:15424000-15430200	Weak transcription	Small Intestine	intestine
13	chr9:15424000-15431000	Weak transcription	Psoas Muscle	Psoas
14	chr9:15424000-15443400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr9:15424000-15443600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr9:15424200-15425200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr9:15424200-15425200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr9:15424200-15425200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr9:15424200-15425200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr9:15424200-15425200	Weak transcription	Thymus	Thymus
21	chr9:15424200-15425400	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr9:15424200-15425400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:15424200-15425400	Enhancers	Brain Angular Gyrus	brain
24	chr9:15424200-15425600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr9:15424200-15425600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr9:15424200-15425600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
27	chr9:15424200-15425600	Weak transcription	Aorta	Aorta
28	chr9:15424200-15425800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
29	chr9:15424200-15425800	Weak transcription	Rectal Smooth Muscle	rectum
30	chr9:15424200-15426000	Weak transcription	Right Atrium	heart
31	chr9:15424200-15426600	Enhancers	Fetal Heart	heart
32	chr9:15424200-15426600	Strong transcription	Fetal Muscle Leg	muscle
33	chr9:15424200-15426800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr9:15424400-15426600	Genic enhancers	Dnd41	blood
35	chr9:15424600-15425200	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr9:15424600-15425200	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr9:15424600-15425400	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr9:15424600-15425800	Genic enhancers	HUVEC	blood vessel
39	chr9:15424600-15426000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr9:15424600-15426000	Genic enhancers	Monocytes-CD14+_RO01746	blood
41	chr9:15424600-15426400	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr9:15424600-15426600	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:15424600-15426800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr9:15424600-15427000	Genic enhancers	Fetal Lung	lung
45	chr9:15424600-15427800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
46	chr9:15424600-15428400	Strong transcription	Fetal Thymus	thymus
47	chr9:15424600-15430400	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr9:15424800-15425200	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:15424800-15425200	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr9:15424800-15425200	Flanking Active TSS	GM12878-XiMat	blood

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