Variant report

Variant	rs1754398
Chromosome Location	chr6:101389654-101389655
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1069049	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1099911	0.84[EUR][1000 genomes]
rs1754397	1.00[EUR][1000 genomes]
rs1754399	0.81[EUR][1000 genomes]
rs1765058	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2244658	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2771415	0.94[EUR][1000 genomes]
rs2771419	1.00[EUR][1000 genomes]
rs35467606	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4270794	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4339475	0.93[EUR][1000 genomes]
rs592436	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs593129	1.00[EUR][1000 genomes]
rs595422	0.82[EUR][1000 genomes]
rs607079	0.82[EUR][1000 genomes]
rs618919	0.87[EUR][1000 genomes]
rs622353	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs638823	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs638884	0.99[EUR][1000 genomes]
rs655038	0.95[EUR][1000 genomes]
rs6570972	0.84[EUR][1000 genomes]
rs6570975	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6570976	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs657915	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs661142	0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs669716	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs673588	0.81[EUR][1000 genomes]
rs680857	0.95[EUR][1000 genomes]
rs6917991	0.81[EUR][1000 genomes]
rs6919745	0.82[ASN][1000 genomes]
rs6931410	0.84[EUR][1000 genomes]
rs6934256	0.82[ASN][1000 genomes]
rs694427	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs705592	0.82[EUR][1000 genomes]
rs705593	0.84[EUR][1000 genomes]
rs705596	0.84[EUR][1000 genomes]
rs705599	0.84[EUR][1000 genomes]
rs705600	0.84[EUR][1000 genomes]
rs705603	0.85[EUR][1000 genomes]
rs705604	0.85[EUR][1000 genomes]
rs705605	0.85[EUR][1000 genomes]
rs705606	0.81[EUR][1000 genomes]
rs705607	0.85[EUR][1000 genomes]
rs705608	0.85[EUR][1000 genomes]
rs705610	0.87[EUR][1000 genomes]
rs705623	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7738575	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7739574	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7750098	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750122	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7760062	0.81[EUR][1000 genomes]
rs7763793	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs817236	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs817675	1.00[EUR][1000 genomes]
rs846771	0.84[EUR][1000 genomes]
rs846772	0.84[EUR][1000 genomes]
rs846773	0.84[EUR][1000 genomes]
rs846775	0.85[EUR][1000 genomes]
rs846781	0.82[EUR][1000 genomes]
rs846782	0.83[EUR][1000 genomes]
rs846785	0.84[EUR][1000 genomes]
rs846794	0.84[EUR][1000 genomes]
rs846797	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs846798	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs861685	0.82[EUR][1000 genomes]
rs863658	0.97[EUR][1000 genomes]
rs864659	0.88[EUR][1000 genomes]
rs864664	0.91[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs865318	0.84[EUR][1000 genomes]
rs9322294	0.81[EUR][1000 genomes]
rs9377239	0.84[EUR][1000 genomes]
rs9377242	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9498419	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1020692	chr6:101136992-101426071	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886457	chr6:101158950-101487473	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1020400	chr6:101172705-101981665	Weak transcription Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv538390	chr6:101172705-101981665	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv1019213	chr6:101225650-101623140	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
7	nsv538391	chr6:101225650-101623140	Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	esv2763587	chr6:101277874-101510491	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:101374600-101398000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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