Variant report

Variant	rs7744962
Chromosome Location	chr6:53812255-53812256
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10456168	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10456676	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10755768	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10948790	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12190914	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13437448	0.85[ASN][1000 genomes]
rs2006013	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2050159	0.80[EUR][1000 genomes]
rs34299171	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4398734	0.81[ASN][1000 genomes]
rs4712050	0.85[ASN][1000 genomes]
rs4712051	0.86[ASN][1000 genomes]
rs5006063	0.87[ASN][1000 genomes]
rs6458973	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6902746	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6907354	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6909052	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6909056	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6909350	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6927232	0.84[ASN][1000 genomes]
rs6928440	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6935942	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs742525	0.81[ASN][1000 genomes]
rs7769351	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7773779	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9296727	0.85[ASN][1000 genomes]
rs9357777	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9367545	0.88[AMR][1000 genomes]
rs9370245	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9395890	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9395891	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9395892	0.86[AMR][1000 genomes]
rs9395893	0.81[ASN][1000 genomes]
rs9395894	0.81[ASN][1000 genomes]
rs9463996	0.80[EUR][1000 genomes]
rs9463997	0.80[EUR][1000 genomes]
rs9474680	0.80[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	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv830664	chr6:53698021-53825270	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53794800-53815600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:53795600-53826200	Weak transcription	NHEK	skin
3	chr6:53811400-53825000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links