Variant report

Variant	rs220896
Chromosome Location	chr6:15769538-15769539
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15767905..15772449-chr6:16128086..16131802,6	K562	blood:
2	chr6:15768943..15771188-chr6:15931054..15932857,2	K562	blood:
3	chr6:15769393..15771029-chr6:15905967..15908693,2	MCF-7	breast:
4	chr6:15768418..15771431-chr6:16127992..16131579,4	MCF-7	breast:
5	chr6:15755559..15757788-chr6:15768543..15770822,3	K562	blood:
6	chr6:15767469..15773334-chr6:16127835..16130840,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000007944	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11965065	0.85[JPT][hapmap]
rs11970558	0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12110659	0.86[CHB][hapmap];0.90[CHD][hapmap];0.91[MEX][hapmap]
rs13202323	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13211098	0.86[CHB][hapmap]
rs16876807	0.85[JPT][hapmap]
rs17411020	0.90[ASN][1000 genomes]
rs17476541	0.90[ASN][1000 genomes]
rs183397	0.88[CEU][hapmap]
rs1887605	0.88[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs191986	0.89[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.95[MEX][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1927580	0.94[ASN][1000 genomes]
rs1927581	0.91[ASN][1000 genomes]
rs2002087	1.00[ASN][1000 genomes]
rs2007855	0.87[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs220890	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220891	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220894	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220895	1.00[CEU][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220897	0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220898	0.87[ASW][hapmap];1.00[CEU][hapmap];0.84[MKK][hapmap];0.89[TSI][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220899	1.00[CEU][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220900	1.00[CEU][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs220901	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220903	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs220904	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220905	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220907	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs220908	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220911	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs220913	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs220914	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs220917	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs220918	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs220919	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs220920	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs374814	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs398785	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs413080	0.87[ASW][hapmap];1.00[CEU][hapmap];0.82[MKK][hapmap];0.87[TSI][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs420350	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56106152	0.88[ASN][1000 genomes]
rs56795754	0.94[ASN][1000 genomes]
rs62395049	0.91[ASN][1000 genomes]
rs6908590	0.83[EUR][1000 genomes]
rs6914413	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6925310	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs6925866	0.80[AFR][1000 genomes]
rs74111	0.81[ASW][hapmap];0.89[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9464820	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9464821	1.00[CHB][hapmap]
rs9464828	0.86[CHB][hapmap]
rs9464829	0.89[CEU][hapmap]
rs9476903	0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.81[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9476904	1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9476908	0.94[ASN][1000 genomes]
rs9476909	1.00[ASN][1000 genomes]
rs9476910	1.00[ASN][1000 genomes]
rs9476913	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9476930	0.89[CEU][hapmap];0.86[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9476932	0.89[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.95[MEX][hapmap];0.82[EUR][1000 genomes]
rs9476941	0.86[CHB][hapmap];0.90[CHD][hapmap];0.91[MEX][hapmap]
rs990062	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
2	esv2762581	chr6:15763793-15774802	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv518098	chr6:15764675-15771988	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	1 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	chr6:15759200-15770000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr6:15762200-15782000	Weak transcription	Pancreas	Pancrea
3	chr6:15764800-15770200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr6:15765000-15770000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:15765000-15771000	Weak transcription	Gastric	stomach
6	chr6:15768800-15771600	Enhancers	K562	blood
7	chr6:15769200-15771800	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links