Variant report

Variant	rs9446740
Chromosome Location	chr6:73434116-73434117
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10805964	0.95[JPT][hapmap]
rs10943042	0.88[CHD][hapmap];0.95[JPT][hapmap]
rs10943044	0.95[JPT][hapmap]
rs10943046	0.80[ASN][1000 genomes]
rs12111265	0.91[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs12175038	0.95[JPT][hapmap]
rs12523691	0.85[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1543621	0.95[JPT][hapmap]
rs16882711	0.85[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs17692121	0.88[CHD][hapmap];0.95[JPT][hapmap]
rs1884090	0.85[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1997914	0.95[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2179952	0.89[YRI][hapmap]
rs2207265	0.90[CHB][hapmap];0.91[CHD][hapmap];0.87[JPT][hapmap];0.83[MEX][hapmap];0.88[ASN][1000 genomes]
rs2207266	0.93[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2207267	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2223939	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3936157	0.82[ASN][1000 genomes]
rs4706511	0.86[CHB][hapmap];0.88[CHD][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs4707978	0.83[JPT][hapmap]
rs4707980	0.86[CHB][hapmap]
rs4707981	0.85[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap]
rs4707983	0.85[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs4707984	0.85[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs4707985	0.91[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6453598	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6453599	0.90[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs6453600	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66811027	0.85[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6900100	0.95[JPT][hapmap]
rs6906977	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6910780	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6913237	0.95[JPT][hapmap]
rs6915647	0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs6917707	0.83[JPT][hapmap]
rs6922044	0.82[CHD][hapmap];0.83[JPT][hapmap]
rs6922327	0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6922479	0.87[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6922837	0.87[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6923028	0.85[CEU][hapmap];0.86[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6926943	0.86[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap]
rs6931363	0.95[JPT][hapmap]
rs6937158	0.88[CHD][hapmap];0.95[JPT][hapmap]
rs6937341	0.95[JPT][hapmap]
rs7451091	0.85[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs769133	0.81[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs7738588	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7738589	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7749079	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs7754096	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7760979	0.86[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap]
rs7768117	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7771839	0.82[ASN][1000 genomes]
rs7772481	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7772714	0.86[CHD][hapmap];0.95[JPT][hapmap]
rs7772876	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7776102	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs867521	0.95[JPT][hapmap]
rs9293896	0.91[JPT][hapmap];0.89[ASN][1000 genomes]
rs9293897	0.88[ASN][1000 genomes]
rs9293898	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs9293899	0.86[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs9293900	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9293901	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9293902	0.87[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9293904	0.85[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9293905	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9293906	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9341386	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9342961	0.81[CHB][hapmap];0.86[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap]
rs9342962	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs9342967	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9342968	0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9351938	0.91[CHB][hapmap];0.86[CHD][hapmap];0.83[GIH][hapmap];0.91[JPT][hapmap];0.82[MEX][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9360571	0.88[CHD][hapmap];0.95[JPT][hapmap]
rs9360572	0.95[JPT][hapmap]
rs9360580	0.95[JPT][hapmap]
rs9360584	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs9360587	0.81[CHB][hapmap];0.83[JPT][hapmap]
rs9360588	0.85[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.83[MEX][hapmap];0.84[ASN][1000 genomes]
rs9360593	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9360594	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9442830	0.82[CHB][hapmap];0.80[CHD][hapmap];0.83[JPT][hapmap]
rs9442831	0.82[CHB][hapmap];0.83[JPT][hapmap]
rs9442834	0.81[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap]
rs9442835	0.86[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs9442836	0.84[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs9442837	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9446734	0.90[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs9446739	0.85[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs993314	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023809	chr6:73157813-73477997	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv538303	chr6:73157813-73477997	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	esv3347486	chr6:73283590-73445976	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv830689	chr6:73385557-73544404	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv830690	chr6:73391428-73574304	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73399400-73438200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:73425200-73437600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:73429600-73434400	Weak transcription	Psoas Muscle	Psoas
4	chr6:73430400-73434200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:73430600-73434200	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr6:73430600-73437600	Weak transcription	HSMM	muscle
7	chr6:73430800-73434200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:73432200-73437400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:73434000-73434600	Enhancers	Primary B cells from cord blood	blood
10	chr6:73434000-73434600	Enhancers	Primary B cells from peripheral blood	blood
11	chr6:73434000-73434600	Enhancers	Osteobl	bone
12	chr6:73434000-73434800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:73434000-73434800	Flanking Active TSS	GM12878-XiMat	blood

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