Variant report

Variant	rs2781643
Chromosome Location	chr6:131856043-131856044
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	chr6:131520459..131521490-chr6:131854662..131856165,8	MCF-7	breast:
2	chr6:131206708..131207515-chr6:131855456..131856172,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000118507	Chromatin interaction

Extended variants
information (count: 136 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:132)

rs_ID	r²[population]
rs12190468	0.80[ASN][1000 genomes]
rs12196690	0.80[ASN][1000 genomes]
rs12198874	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12201347	0.81[ASN][1000 genomes]
rs1334353	0.81[ASN][1000 genomes]
rs1572211	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2246167	0.81[ASN][1000 genomes]
rs2246168	0.81[ASN][1000 genomes]
rs2246281	0.81[ASN][1000 genomes]
rs2246372	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2249537	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2249691	0.81[ASN][1000 genomes]
rs2249821	0.81[ASN][1000 genomes]
rs2446214	0.81[ASN][1000 genomes]
rs2446216	0.81[ASN][1000 genomes]
rs2446217	0.81[ASN][1000 genomes]
rs2446218	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2446221	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2446223	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2483802	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2491205	0.81[ASN][1000 genomes]
rs2491207	0.81[ASN][1000 genomes]
rs2491208	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2608900	0.90[ASN][1000 genomes]
rs2608901	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2608907	0.94[ASN][1000 genomes]
rs2608909	0.84[ASN][1000 genomes]
rs2608910	0.84[ASN][1000 genomes]
rs2608923	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2608924	0.87[ASN][1000 genomes]
rs2608925	0.87[ASN][1000 genomes]
rs2608929	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2608931	0.87[ASN][1000 genomes]
rs2608932	0.87[ASN][1000 genomes]
rs2608933	0.87[ASN][1000 genomes]
rs2608936	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2608947	0.81[ASN][1000 genomes]
rs2608948	0.81[ASN][1000 genomes]
rs2608956	0.81[ASN][1000 genomes]
rs2608957	0.81[ASN][1000 genomes]
rs2608958	0.81[ASN][1000 genomes]
rs2608959	0.81[ASN][1000 genomes]
rs2608960	0.81[ASN][1000 genomes]
rs2608961	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2608962	0.81[ASN][1000 genomes]
rs2608963	0.81[ASN][1000 genomes]
rs2608964	0.81[ASN][1000 genomes]
rs2608965	0.81[ASN][1000 genomes]
rs2608966	0.81[ASN][1000 genomes]
rs2608967	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2608968	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2608969	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2608970	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2608971	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2608972	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2608973	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2608974	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2749927	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2749928	1.00[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2749929	0.90[ASN][1000 genomes]
rs2749930	0.91[ASN][1000 genomes]
rs2749936	0.85[ASN][1000 genomes]
rs2749937	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2781622	0.81[ASN][1000 genomes]
rs2781623	0.81[ASN][1000 genomes]
rs2781624	0.81[ASN][1000 genomes]
rs2781625	0.81[ASN][1000 genomes]
rs2781626	0.81[ASN][1000 genomes]
rs2781627	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2781629	0.87[ASN][1000 genomes]
rs2781630	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2781631	0.87[ASN][1000 genomes]
rs2781632	0.87[ASN][1000 genomes]
rs2781633	0.86[ASN][1000 genomes]
rs2781634	0.87[ASN][1000 genomes]
rs2781636	0.87[ASN][1000 genomes]
rs2781637	0.90[ASN][1000 genomes]
rs2781638	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2781639	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2781640	0.90[ASN][1000 genomes]
rs2781644	0.81[ASN][1000 genomes]
rs2781646	0.84[ASN][1000 genomes]
rs2781647	0.84[ASN][1000 genomes]
rs2781648	0.81[ASN][1000 genomes]
rs2781653	0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2807277	0.81[ASN][1000 genomes]
rs2807279	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2807280	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807281	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807282	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807283	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807284	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807286	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807287	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807288	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807289	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2807290	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2807291	0.81[ASN][1000 genomes]
rs2807292	0.81[ASN][1000 genomes]
rs2807293	0.81[ASN][1000 genomes]
rs2807294	0.81[ASN][1000 genomes]
rs2807295	0.81[ASN][1000 genomes]
rs2807296	0.81[ASN][1000 genomes]
rs36158725	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3850240	0.87[ASN][1000 genomes]
rs3904568	0.81[ASN][1000 genomes]
rs4053133	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4053139	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4243503	0.81[ASN][1000 genomes]
rs4294029	0.81[ASN][1000 genomes]
rs4565332	0.81[ASN][1000 genomes]
rs4566904	0.81[ASN][1000 genomes]
rs4897522	0.81[ASN][1000 genomes]
rs4897526	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6569744	0.81[ASN][1000 genomes]
rs6569745	0.81[ASN][1000 genomes]
rs6569746	0.81[ASN][1000 genomes]
rs6912764	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6918117	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6927780	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6927940	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7743698	0.94[ASN][1000 genomes]
rs7743727	0.81[ASN][1000 genomes]
rs7744007	0.81[ASN][1000 genomes]
rs7744116	0.81[ASN][1000 genomes]
rs9321298	0.86[ASN][1000 genomes]
rs9321301	0.87[ASN][1000 genomes]
rs9375816	0.86[ASN][1000 genomes]
rs9398987	0.81[ASN][1000 genomes]
rs9402335	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9493004	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9784795	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv515476	chr6:131615425-132228577	Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	esv2829868	chr6:131729859-131898208	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv886667	chr6:131807510-131876943	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv886668	chr6:131814865-131954797	Strong transcription Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131840400-131856400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:131853800-131856600	Enhancers	Dnd41	blood
3	chr6:131854000-131856400	Enhancers	HepG2	liver
4	chr6:131855800-131856200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr6:131856000-131856200	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links