Variant report

Variant	rs1741790
Chromosome Location	chr6:64065661-64065662
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	chr6:64061851..64067000-chr6:64282014..64286349,7	MCF-7	breast:
2	chr6:64059286..64067591-chr6:64279675..64285580,14	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266680	Chromatin interaction
ENSG00000112245	Chromatin interaction

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs1010057	1.00[EUR][1000 genomes]
rs1320419	1.00[EUR][1000 genomes]
rs1404779	1.00[EUR][1000 genomes]
rs1464865	1.00[EUR][1000 genomes]
rs1464866	0.95[EUR][1000 genomes]
rs1525354	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1525355	1.00[EUR][1000 genomes]
rs1525357	1.00[EUR][1000 genomes]
rs1608812	0.85[EUR][1000 genomes]
rs1619321	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1621804	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1625205	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1628449	0.95[EUR][1000 genomes]
rs1631333	0.85[EUR][1000 genomes]
rs1711897	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1711898	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1711899	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1711900	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1711901	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1711902	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1711903	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1711904	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1711906	1.00[EUR][1000 genomes]
rs1711912	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1711913	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1711914	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1711915	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1711918	1.00[EUR][1000 genomes]
rs1711919	0.85[EUR][1000 genomes]
rs1711927	1.00[EUR][1000 genomes]
rs1711928	1.00[EUR][1000 genomes]
rs1723497	1.00[EUR][1000 genomes]
rs1723498	1.00[EUR][1000 genomes]
rs1723499	1.00[EUR][1000 genomes]
rs1723500	1.00[EUR][1000 genomes]
rs1723502	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1723503	1.00[EUR][1000 genomes]
rs1723504	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1723506	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1723507	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1723508	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1723528	0.91[EUR][1000 genomes]
rs1723531	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1741780	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1741782	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1741783	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1741784	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1741786	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1741787	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1741788	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1741789	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1741799	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1741802	0.85[EUR][1000 genomes]
rs1741805	1.00[EUR][1000 genomes]
rs1741810	1.00[EUR][1000 genomes]
rs1741813	1.00[EUR][1000 genomes]
rs1779745	0.85[EUR][1000 genomes]
rs1779753	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1779755	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1779756	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1779757	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1779758	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1779760	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1779761	0.92[AMR][1000 genomes]
rs1779762	0.96[AMR][1000 genomes]
rs1857565	0.85[EUR][1000 genomes]
rs1936532	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2005098	1.00[EUR][1000 genomes]
rs2474905	0.88[AMR][1000 genomes]
rs2474908	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2622306	0.85[EUR][1000 genomes]
rs2622308	0.85[EUR][1000 genomes]
rs2677021	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2677022	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2677023	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2677024	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2677026	1.00[EUR][1000 genomes]
rs2677027	1.00[EUR][1000 genomes]
rs2677028	1.00[EUR][1000 genomes]
rs2677029	1.00[EUR][1000 genomes]
rs2753064	0.85[EUR][1000 genomes]
rs2753065	0.85[EUR][1000 genomes]
rs2753069	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2753070	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2753071	1.00[EUR][1000 genomes]
rs2753072	1.00[EUR][1000 genomes]
rs2753073	1.00[EUR][1000 genomes]
rs2753074	1.00[EUR][1000 genomes]
rs2800019	0.81[EUR][1000 genomes]
rs2800020	0.85[EUR][1000 genomes]
rs2800021	0.85[EUR][1000 genomes]
rs2800024	0.85[EUR][1000 genomes]
rs2800025	0.85[EUR][1000 genomes]
rs2800029	0.85[EUR][1000 genomes]
rs2800031	1.00[EUR][1000 genomes]
rs2800034	1.00[EUR][1000 genomes]
rs2800035	1.00[EUR][1000 genomes]
rs2800036	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4710426	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4710427	0.92[AMR][1000 genomes]
rs482904	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs58623141	0.88[AMR][1000 genomes]
rs59943612	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60505637	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61229307	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6454169	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6933112	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs732948	1.00[EUR][1000 genomes]
rs7381742	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7382020	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7739266	0.88[AMR][1000 genomes]
rs7750785	1.00[EUR][1000 genomes]
rs7752941	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7757686	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7758841	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7761720	0.90[EUR][1000 genomes]
rs7771677	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7771703	0.90[EUR][1000 genomes]
rs824372	0.89[ASN][1000 genomes]
rs824373	1.00[EUR][1000 genomes]
rs824374	1.00[EUR][1000 genomes]
rs824375	1.00[EUR][1000 genomes]
rs824376	1.00[EUR][1000 genomes]
rs824377	1.00[EUR][1000 genomes]
rs824378	1.00[EUR][1000 genomes]
rs824379	1.00[EUR][1000 genomes]
rs824380	1.00[EUR][1000 genomes]
rs824381	1.00[EUR][1000 genomes]
rs824383	1.00[EUR][1000 genomes]
rs824385	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs824387	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs824388	0.85[EUR][1000 genomes]
rs824390	1.00[EUR][1000 genomes]
rs824391	1.00[EUR][1000 genomes]
rs824392	1.00[EUR][1000 genomes]
rs824393	1.00[EUR][1000 genomes]
rs824394	1.00[EUR][1000 genomes]
rs860349	1.00[EUR][1000 genomes]
rs861113	1.00[EUR][1000 genomes]
rs865415	1.00[EUR][1000 genomes]
rs865416	1.00[EUR][1000 genomes]
rs940741	1.00[EUR][1000 genomes]
rs9767041	1.00[EUR][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	nsv1019831	chr6:63279677-64230736	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv538270	chr6:63682752-64147241	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1031548	chr6:64026862-64102045	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1030651	chr6:64028392-64102045	Enhancers ZNF genes & repeats Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64040400-64071200	Weak transcription	Placenta	Placenta
2	chr6:64062600-64071200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:64065200-64066000	Enhancers	HepG2	liver
4	chr6:64065400-64065800	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr6:64065600-64065800	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr6:64065600-64065800	Enhancers	Liver	Liver
7	chr6:64065600-64065800	Enhancers	A549	lung
8	chr6:64065600-64066000	Enhancers	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links