Variant report

Variant	rs220796
Chromosome Location	chr6:165804854-165804855
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1759948	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220739	1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220740	1.00[CHB][hapmap];0.88[JPT][hapmap];0.95[ASN][1000 genomes]
rs220741	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220742	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220743	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220744	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220745	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220746	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs220747	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220748	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs220750	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs220751	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs220753	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.97[ASN][1000 genomes]
rs220754	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220760	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220765	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220771	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220773	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220779	0.89[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220782	0.94[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs220783	0.88[CEU][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs220785	1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[ASN][1000 genomes]
rs220786	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220787	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220792	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs220794	0.94[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs220795	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs572291	0.88[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432982	chr6:165528589-165835589	Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv605245	chr6:165542686-165845903	Strong transcription Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	nsv1031648	chr6:165544569-165841029	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv432983	chr6:165554403-165851585	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	esv3417270	chr6:165682773-166023032	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv886928	chr6:165722345-166197889	Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	esv2762630	chr6:165798068-165806114	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	n/a	n/a	inside rSNPs	diseases
8	nsv830863	chr6:165803464-165970091	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:165747600-165853000	Weak transcription	A549	lung
2	chr6:165764400-165813400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:165772000-165835800	Weak transcription	Fetal Kidney	kidney
4	chr6:165779800-165805000	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:165787400-165813400	Weak transcription	Fetal Lung	lung
6	chr6:165788000-165856800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr6:165790000-165810600	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:165790200-165831400	Weak transcription	Fetal Muscle Leg	muscle
9	chr6:165790400-165811400	Weak transcription	Ovary	ovary
10	chr6:165791400-165834000	Weak transcription	Brain Anterior Caudate	brain
11	chr6:165794000-165807400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:165796000-165813400	Weak transcription	Brain Germinal Matrix	brain
13	chr6:165796400-165823000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:165796800-165806400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:165797200-165807600	Weak transcription	Brain Hippocampus Middle	brain
16	chr6:165797800-165809800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr6:165799000-165817600	Weak transcription	Fetal Brain Male	brain
18	chr6:165799200-165805800	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr6:165799200-165808600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:165799200-165811800	Weak transcription	Brain Angular Gyrus	brain
21	chr6:165800400-165807600	Strong transcription	HSMM	muscle
22	chr6:165802000-165827200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:165802600-165810000	Weak transcription	Pancreas	Pancrea
24	chr6:165802800-165831200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr6:165804200-165805400	Weak transcription	Right Ventricle	heart
26	chr6:165804200-165806000	Weak transcription	Fetal Heart	heart
27	chr6:165804200-165828200	Weak transcription	Hela-S3	cervix
28	chr6:165804200-165831400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr6:165804400-165805400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr6:165804400-165807600	Weak transcription	Left Ventricle	heart
31	chr6:165804400-165808000	Weak transcription	Fetal Brain Female	brain
32	chr6:165804400-165816600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr6:165804400-165826000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr6:165804400-165827600	Weak transcription	HSMMtube	muscle

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