Variant report

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs1410764	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16882726	0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs17692655	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17796644	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2179952	0.83[ASN][1000 genomes]
rs2207265	0.92[YRI][hapmap]
rs4706509	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55982853	0.89[ASN][1000 genomes]
rs57838719	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58442660	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61075759	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62410660	0.93[ASN][1000 genomes]
rs6904964	0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs6906977	0.91[YRI][hapmap]
rs6924191	0.93[CHB][hapmap];0.85[JPT][hapmap];0.89[ASN][1000 genomes]
rs73533660	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73533661	0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9293896	1.00[YRI][hapmap]
rs9442836	1.00[YRI][hapmap]
rs9446734	0.85[YRI][hapmap]
rs9446739	0.85[YRI][hapmap]

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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17740488	CXCR3	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73392400-73429800	Weak transcription	HSMM	muscle
2	chr6:73399400-73429200	Weak transcription	Aorta	Aorta
3	chr6:73399400-73438200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:73421800-73431400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
5	chr6:73422800-73428000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:73423000-73434000	Weak transcription	Primary B cells from cord blood	blood
7	chr6:73425200-73429400	Weak transcription	Psoas Muscle	Psoas
8	chr6:73425200-73429800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:73425200-73437600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:73425400-73429600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:73425400-73430400	Weak transcription	HMEC	breast
12	chr6:73426600-73427000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr6:73426800-73427600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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