Variant report

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs11962390	1.00[ASW][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11964549	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11970331	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs1937770	1.00[EUR][1000 genomes]
rs3852218	1.00[EUR][1000 genomes]
rs4132579	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs56864772	1.00[EUR][1000 genomes]
rs61067728	0.87[AMR][1000 genomes]
rs61610189	1.00[EUR][1000 genomes]
rs6924854	1.00[MEX][hapmap]
rs73368128	0.86[AMR][1000 genomes]
rs73368130	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs73368185	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs73368186	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs73368189	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs73368196	0.82[AMR][1000 genomes]
rs73368202	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs73369806	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs73723391	1.00[EUR][1000 genomes]
rs7774032	0.81[ASW][hapmap];1.00[GIH][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes]
rs9463490	1.00[TSI][hapmap]
rs9473429	1.00[GIH][hapmap]
rs9473435	1.00[GIH][hapmap]
rs9473572	1.00[TSI][hapmap]
rs9473580	1.00[TSI][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	esv3521000	chr6:12561306-13128519	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv3521001	chr6:12561306-13128519	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv817350	chr6:12922859-13137655	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv600992	chr6:12961922-13218549	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6931695	CD99	trans	lymphoblastoid	seeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13097200-13106600	Weak transcription	Primary hematopoietic stem cells	blood
2	chr6:13099200-13114200	Weak transcription	Aorta	Aorta
3	chr6:13101800-13114200	Weak transcription	Lung	lung
4	chr6:13102600-13107400	Weak transcription	Brain Cingulate Gyrus	brain
5	chr6:13103200-13113800	Weak transcription	Pancreas	Pancrea
6	chr6:13103600-13114200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:13105600-13106400	Enhancers	Fetal Heart	heart
8	chr6:13105800-13107400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:13105800-13107600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr6:13106000-13106400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr6:13106000-13114400	Weak transcription	Left Ventricle	heart
12	chr6:13106200-13114600	Weak transcription	Brain Anterior Caudate	brain

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