Variant report

Variant	rs8087860
Chromosome Location	chr18:25673138-25673139
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:25658211..25660903-chr18:25672408..25674979,2	MCF-7	breast:

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1078501	0.88[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10853681	0.85[TSI][hapmap]
rs11083246	0.81[CHB][hapmap]
rs1122356	0.94[CHB][hapmap];0.83[CHD][hapmap]
rs1148376	0.88[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs11564297	0.88[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11564316	0.88[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11564393	0.87[CEU][hapmap];0.81[CHB][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11564396	0.81[CEU][hapmap];0.94[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11564397	0.85[TSI][hapmap]
rs11564400	0.81[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11564409	0.88[CHB][hapmap];0.81[JPT][hapmap];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11873053	0.88[CHB][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1220015	0.94[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs1220016	0.94[CHB][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs1220019	0.88[ASN][1000 genomes]
rs1228419	0.94[CHB][hapmap];0.92[CHD][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs1234682	0.88[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs1373136	0.88[CHB][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1373138	0.81[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17446316	0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17468531	0.88[CHB][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1808940	0.80[CEU][hapmap];0.81[CHB][hapmap]
rs1816825	0.81[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1867285	0.85[TSI][hapmap]
rs1972934	0.85[TSI][hapmap]
rs2920447	0.93[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs4800840	0.94[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4800841	0.85[TSI][hapmap]
rs490820	0.94[CHB][hapmap]
rs500643	0.94[CHB][hapmap];0.91[CHD][hapmap];0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs533602	0.88[CHB][hapmap]
rs539075	0.93[CHB][hapmap]
rs565509	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs568575	0.88[CHB][hapmap]
rs576467	0.94[CHB][hapmap]
rs584936	0.94[CHB][hapmap]
rs587526	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs587613	0.88[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs597591	0.94[CHB][hapmap];0.83[CHD][hapmap]
rs602819	1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs610906	0.88[ASN][1000 genomes]
rs614966	0.94[CHB][hapmap];0.83[CHD][hapmap]
rs623234	0.94[CHB][hapmap];0.86[CHD][hapmap]
rs643555	0.88[CHB][hapmap];0.85[CHD][hapmap]
rs647733	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs656642	0.94[CHB][hapmap]
rs665651	0.88[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs665781	0.94[CHB][hapmap];0.86[CHD][hapmap]
rs673008	0.94[CHB][hapmap];0.85[CHD][hapmap]
rs683457	0.88[ASN][1000 genomes]
rs694943	0.94[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs7230771	0.88[CHB][hapmap];0.94[CHD][hapmap];0.91[JPT][hapmap];0.92[TSI][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7237382	0.81[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap]
rs8087457	0.88[CHD][hapmap]
rs8091314	0.81[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs894679	0.81[CHB][hapmap];0.85[TSI][hapmap]
rs9635986	0.81[CHB][hapmap];0.91[JPT][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9789154	0.94[CHB][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9789221	0.85[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25655800-25690800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr18:25668000-25680200	Weak transcription	HSMM	muscle
3	chr18:25668200-25688000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr18:25669000-25674800	Weak transcription	NH-A	brain
5	chr18:25669800-25676000	Weak transcription	Fetal Brain Female	brain
6	chr18:25670000-25675000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr18:25670000-25677000	Weak transcription	Fetal Brain Male	brain
8	chr18:25670400-25687800	Weak transcription	Brain Germinal Matrix	brain
9	chr18:25670600-25690000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr18:25671400-25673800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr18:25671600-25673200	Enhancers	HUES48 Cell Line	embryonic stem cell
12	chr18:25671800-25674800	Weak transcription	Osteobl	bone
13	chr18:25671800-25675600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr18:25671800-25677000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr18:25672000-25674000	Enhancers	A549	lung
16	chr18:25672000-25675000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr18:25672000-25688000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr18:25672200-25673800	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr18:25672200-25674200	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr18:25672200-25674200	Enhancers	Liver	Liver
21	chr18:25672200-25680000	Weak transcription	Left Ventricle	heart
22	chr18:25672200-25680200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr18:25672400-25675000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr18:25672400-25677000	Weak transcription	Fetal Heart	heart
25	chr18:25672600-25673400	Weak transcription	HepG2	liver
26	chr18:25673000-25673400	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr18:25673000-25688400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links