Variant report

Variant	rs12906205
Chromosome Location	chr15:51314455-51314456
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:51303494..51305144-chr15:51312892..51315605,2	MCF-7	breast:
2	chr15:51307908..51310464-chr15:51313426..51315833,2	K562	blood:

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10450980	0.82[ASN][1000 genomes]
rs10468002	0.82[ASN][1000 genomes]
rs10519289	0.88[JPT][hapmap]
rs11070825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11634895	0.88[JPT][hapmap]
rs11636974	0.94[JPT][hapmap]
rs11853182	0.81[ASN][1000 genomes]
rs11854585	0.82[ASN][1000 genomes]
rs11854729	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11855242	0.81[ASN][1000 genomes]
rs11856129	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11856609	0.81[ASN][1000 genomes]
rs11857981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12324214	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12324583	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12898402	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12899397	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12899586	0.94[JPT][hapmap]
rs12901608	0.83[ASN][1000 genomes]
rs12901860	1.00[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12902196	0.85[EUR][1000 genomes]
rs12904155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12907367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12909780	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12911270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12913094	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12916255	0.94[JPT][hapmap]
rs12916334	0.85[EUR][1000 genomes]
rs1438926	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16953045	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16964048	1.00[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs16964077	0.82[ASN][1000 genomes]
rs17521467	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17521789	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17521919	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17599863	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17599974	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1904432	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1912097	0.93[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2083254	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2278559	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs2306333	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28366661	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28430533	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28642856	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28835954	0.82[ASN][1000 genomes]
rs34590712	0.82[ASN][1000 genomes]
rs34810611	0.82[ASN][1000 genomes]
rs34874493	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35114758	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35134521	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35416047	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35439349	0.85[EUR][1000 genomes]
rs35655196	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35684604	0.82[ASN][1000 genomes]
rs35827195	0.81[ASN][1000 genomes]
rs3759806	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3816717	0.88[JPT][hapmap]
rs3825799	0.94[JPT][hapmap]
rs4134038	0.85[EUR][1000 genomes]
rs4775921	0.81[ASN][1000 genomes]
rs55705440	0.82[ASN][1000 genomes]
rs56098136	0.82[ASN][1000 genomes]
rs56345002	0.82[ASN][1000 genomes]
rs58661036	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59625951	0.82[ASN][1000 genomes]
rs60281978	0.82[ASN][1000 genomes]
rs6493470	0.94[JPT][hapmap]
rs71426066	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71471522	0.85[EUR][1000 genomes]
rs71471523	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs71471584	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71471585	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71471587	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7162325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7165920	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7166073	0.93[CEU][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7166600	0.85[EUR][1000 genomes]
rs7170009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7170570	0.82[ASN][1000 genomes]
rs7170937	0.93[CEU][hapmap];0.85[CHB][hapmap];0.94[JPT][hapmap]
rs7175024	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7179321	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7181081	0.80[ASN][1000 genomes]
rs74013148	0.82[ASN][1000 genomes]
rs8026140	0.88[JPT][hapmap]
rs8032236	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8032550	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8032866	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8034812	0.82[ASN][1000 genomes]
rs8036604	0.88[JPT][hapmap]
rs8040954	0.82[JPT][hapmap]
rs9302158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9806654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047443	chr15:50744781-51647023	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	nsv569399	chr15:50874964-51562198	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
3	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
4	nsv1038778	chr15:51196641-51356728	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv904214	chr15:51204364-51535192	Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv1049644	chr15:51265447-51560445	Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	esv34532	chr15:51276128-51752856	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
8	esv2758382	chr15:51282257-51830339	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
9	esv2760031	chr15:51282257-51830339	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
10	nsv428634	chr15:51299632-51446666	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	esv33352	chr15:51303047-51317662	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51265200-51315600	Weak transcription	Gastric	stomach
2	chr15:51270200-51317600	Weak transcription	Psoas Muscle	Psoas
3	chr15:51286200-51315600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr15:51286600-51323000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr15:51289000-51322200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr15:51295800-51322400	Weak transcription	Osteobl	bone
7	chr15:51296800-51316800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr15:51296800-51316800	Weak transcription	NHDF-Ad	bronchial
9	chr15:51297800-51317000	Weak transcription	HSMMtube	muscle
10	chr15:51298800-51322400	Weak transcription	Aorta	Aorta
11	chr15:51298800-51322800	Weak transcription	Left Ventricle	heart
12	chr15:51299800-51316800	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr15:51300600-51330600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr15:51301000-51315400	Weak transcription	HSMM	muscle
15	chr15:51301000-51317600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr15:51302000-51317000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:51302200-51316200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:51311200-51322800	Weak transcription	Liver	Liver
19	chr15:51312600-51322600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:51312800-51316000	Weak transcription	NHEK	skin
21	chr15:51312800-51317000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr15:51313400-51317800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr15:51313800-51315000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:51314400-51314800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:51314400-51316800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links