Variant report

Variant	rs6869591
Chromosome Location	chr5:108078773-108078774
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:108077055..108079397-chr5:108082740..108086004,4	MCF-7	breast:
2	chr5:108060235..108074407-chr5:108078172..108087811,48	K562	blood:

Variant related genes	Relation type
ENSG00000272523	Chromatin interaction
ENSG00000151422	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10036583	1.00[JPT][hapmap]
rs10037675	1.00[JPT][hapmap]
rs10039132	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10039951	1.00[JPT][hapmap]
rs10041657	1.00[JPT][hapmap]
rs10042152	1.00[JPT][hapmap]
rs10042569	1.00[JPT][hapmap]
rs10050547	1.00[JPT][hapmap]
rs10052208	1.00[JPT][hapmap]
rs10052531	1.00[JPT][hapmap]
rs10054086	1.00[JPT][hapmap]
rs10061811	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10064960	1.00[JPT][hapmap]
rs10065605	1.00[JPT][hapmap]
rs10065611	1.00[JPT][hapmap]
rs10066173	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070327	1.00[JPT][hapmap]
rs10077917	1.00[JPT][hapmap]
rs10214241	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1022045	0.81[CEU][hapmap]
rs10223256	0.82[JPT][hapmap]
rs10477428	1.00[JPT][hapmap]
rs10477429	1.00[JPT][hapmap]
rs10477432	1.00[JPT][hapmap]
rs10477931	1.00[JPT][hapmap]
rs11741855	0.88[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11748534	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12719099	1.00[JPT][hapmap]
rs13358881	1.00[JPT][hapmap]
rs13359423	1.00[JPT][hapmap]
rs13360253	1.00[JPT][hapmap]
rs1396444	1.00[JPT][hapmap]
rs1423456	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1423459	1.00[JPT][hapmap]
rs17161463	0.96[ASN][1000 genomes]
rs17161466	0.88[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17161476	0.81[CEU][hapmap];0.87[TSI][hapmap]
rs17161505	1.00[JPT][hapmap]
rs17161540	1.00[JPT][hapmap]
rs17161562	1.00[JPT][hapmap]
rs17163941	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2009646	1.00[JPT][hapmap]
rs2081128	1.00[JPT][hapmap]
rs2113001	1.00[JPT][hapmap]
rs2229085	1.00[JPT][hapmap]
rs28376017	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2900037	1.00[JPT][hapmap]
rs35141056	1.00[JPT][hapmap]
rs3805600	1.00[JPT][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs3805601	0.93[CEU][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3828655	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs41508849	1.00[JPT][hapmap]
rs4358573	1.00[JPT][hapmap]
rs4361568	1.00[JPT][hapmap]
rs4479887	1.00[JPT][hapmap]
rs4560594	1.00[JPT][hapmap]
rs4560595	1.00[JPT][hapmap]
rs62361298	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62361300	0.80[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6594341	1.00[JPT][hapmap]
rs6859105	0.84[ASN][1000 genomes]
rs6859750	0.84[ASN][1000 genomes]
rs6870408	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6873130	1.00[JPT][hapmap]
rs6873917	1.00[JPT][hapmap]
rs6888173	1.00[JPT][hapmap]
rs7711892	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7715658	1.00[JPT][hapmap]
rs7716320	0.81[CEU][hapmap];0.87[TSI][hapmap]
rs7716498	0.81[CEU][hapmap]
rs7728920	1.00[JPT][hapmap]
rs889269	1.00[JPT][hapmap]
rs9326750	1.00[JPT][hapmap]
rs9326752	1.00[JPT][hapmap]
rs9885265	1.00[JPT][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	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108066600-108082600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:108076400-108079600	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:108076600-108080000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr5:108078000-108080400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:108078400-108079200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr5:108078400-108079800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:108078600-108079600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links