Variant report

Variant	rs6924689
Chromosome Location	chr6:13025819-13025820
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10807388	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11758659	0.90[EUR][1000 genomes]
rs12216401	0.95[ASN][1000 genomes]
rs1579135	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1937771	0.92[ASN][1000 genomes]
rs34576660	0.81[EUR][1000 genomes]
rs4132046	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4236097	0.81[EUR][1000 genomes]
rs4292514	0.95[ASN][1000 genomes]
rs4349811	0.87[CEU][hapmap];0.83[CHD][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs4357136	0.92[ASN][1000 genomes]
rs4367379	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4432976	0.88[CEU][hapmap];0.90[CHB][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.95[ASN][1000 genomes]
rs4492189	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4580867	0.95[ASN][1000 genomes]
rs4624870	0.94[ASN][1000 genomes]
rs4715043	0.83[CHD][hapmap];0.87[TSI][hapmap]
rs4715048	0.87[CEU][hapmap];0.89[EUR][1000 genomes]
rs5002331	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6899754	0.82[CHD][hapmap]
rs6901563	0.83[CHD][hapmap]
rs7341250	0.88[CEU][hapmap];0.83[CHD][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs7738606	0.95[ASN][1000 genomes]
rs7743585	0.87[JPT][hapmap]
rs7748124	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs7750023	0.87[JPT][hapmap]
rs7750099	0.87[JPT][hapmap]
rs7775103	0.87[JPT][hapmap]
rs9349456	0.95[ASN][1000 genomes]
rs9369759	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9369760	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9369768	0.88[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.89[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9369779	0.90[ASN][1000 genomes]
rs9369815	0.88[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9381636	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9395335	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9463363	0.88[CEU][hapmap];0.83[CHD][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs9463364	0.88[CEU][hapmap];0.83[CHD][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs9473198	0.89[EUR][1000 genomes]
rs9473285	0.88[CHB][hapmap];0.87[JPT][hapmap]
rs9473437	0.88[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9473486	0.84[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]

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

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13015000-13026000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:13015000-13026400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:13015600-13027600	Weak transcription	Right Atrium	heart
4	chr6:13015800-13029000	Weak transcription	Pancreas	Pancrea
5	chr6:13020800-13028800	Weak transcription	Left Ventricle	heart
6	chr6:13021200-13026000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr6:13021200-13026200	Weak transcription	Aorta	Aorta
8	chr6:13021800-13026200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:13023800-13026400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:13024000-13026400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr6:13024200-13026400	Weak transcription	Right Ventricle	heart
12	chr6:13024200-13026600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:13024600-13027000	Enhancers	Brain Cingulate Gyrus	brain
14	chr6:13024600-13027600	Enhancers	Brain Angular Gyrus	brain
15	chr6:13024600-13030800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr6:13024800-13027400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:13025000-13026000	Weak transcription	Brain Anterior Caudate	brain
18	chr6:13025000-13026200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:13025000-13026400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:13025600-13027600	Enhancers	Fetal Brain Male	brain
21	chr6:13025600-13031800	Enhancers	Fetal Heart	heart
22	chr6:13025800-13026000	Enhancers	Brain Hippocampus Middle	brain
23	chr6:13025800-13026000	Enhancers	Stomach Smooth Muscle	stomach
24	chr6:13025800-13026600	Enhancers	Fetal Brain Female	brain
25	chr6:13025800-13027000	Enhancers	Colon Smooth Muscle	Colon
26	chr6:13025800-13027000	Enhancers	NHDF-Ad	bronchial

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