Variant report

Variant	rs1109287
Chromosome Location	chr6:15760644-15760645
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15757449..15762937-chr6:16128503..16130912,5	MCF-7	breast:
2	chr6:15759762..15765920-chr6:16126887..16131377,7	MCF-7	breast:
3	chr6:15760446..15762899-chr6:15770355..15772720,2	K562	blood:
4	chr6:15749973..15753066-chr6:15759762..15763032,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs11970558	0.85[EUR][1000 genomes]
rs12192181	0.85[LWK][hapmap];0.82[YRI][hapmap]
rs12332848	0.86[AFR][1000 genomes]
rs12333139	0.86[AFR][1000 genomes]
rs183397	0.86[CHB][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs1927576	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927577	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1927579	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927585	0.89[YRI][hapmap]
rs2002086	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2093622	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2146594	0.83[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.95[JPT][hapmap];0.89[LWK][hapmap];0.96[MEX][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2181434	0.94[ASW][hapmap];0.89[CEU][hapmap];0.81[CHB][hapmap];0.82[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.88[LWK][hapmap];0.86[TSI][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220895	0.86[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220897	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs220898	0.93[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.84[TSI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220899	0.93[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220900	0.93[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220903	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs220904	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220905	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220907	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs220911	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs220913	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs220914	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs220917	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs220918	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs220919	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs220920	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs387816	0.86[CHB][hapmap]
rs413080	0.93[CHB][hapmap];0.94[CHD][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs552546	0.86[CHB][hapmap]
rs56106152	0.86[EUR][1000 genomes]
rs6914413	0.86[EUR][1000 genomes]
rs6922522	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6925310	0.86[CHB][hapmap];0.94[CHD][hapmap]
rs6935121	0.82[YRI][hapmap]
rs7758099	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774855	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9349986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464822	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9464829	0.86[CHB][hapmap];0.97[CHD][hapmap];0.88[MEX][hapmap]
rs9476903	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs9476906	0.96[YRI][hapmap];0.85[AFR][1000 genomes]
rs9476908	0.85[EUR][1000 genomes]
rs9476934	0.85[YRI][hapmap]
rs9476935	0.80[ASN][1000 genomes]

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	nsv428136	chr6:15595640-15781241	Enhancers Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15756200-15763600	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:15759200-15770000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:15759800-15763600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr6:15759800-15764200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:15760200-15762400	Enhancers	Liver	Liver
6	chr6:15760600-15762200	Enhancers	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links