Variant report

Variant	rs4706509
Chromosome Location	chr6:73365274-73365275
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1410764	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16882726	0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs17692655	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17740488	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]
rs17796644	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4707981	0.81[YRI][hapmap]
rs55982853	0.82[ASN][1000 genomes]
rs57838719	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58442660	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61075759	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62410660	0.85[ASN][1000 genomes]
rs6904964	0.93[CHB][hapmap];0.91[CHD][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs6924191	0.93[CHB][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs6937158	0.81[YRI][hapmap]
rs73533660	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73533661	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73533663	0.81[AFR][1000 genomes]
rs9293896	0.85[YRI][hapmap]
rs9360572	0.81[YRI][hapmap]
rs9442836	0.83[YRI][hapmap]

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	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	esv1794408	chr6:73363298-73419987	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4706509	CXCR3	trans	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73359600-73373000	Weak transcription	Primary hematopoietic stem cells	blood
2	chr6:73359600-73398800	Weak transcription	Primary B cells from peripheral blood	blood
3	chr6:73359800-73386800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:73360400-73372600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr6:73361000-73367200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:73361800-73367200	Weak transcription	NHEK	skin
7	chr6:73362400-73367200	Weak transcription	Osteobl	bone
8	chr6:73362600-73367200	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:73362600-73371600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr6:73362600-73379200	Weak transcription	Psoas Muscle	Psoas
11	chr6:73362800-73371400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr6:73363200-73367200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:73364400-73383200	Weak transcription	Primary B cells from cord blood	blood
14	chr6:73365000-73375200	Weak transcription	GM12878-XiMat	blood
15	chr6:73365200-73365400	Enhancers	Aorta	Aorta

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