Variant report

Variant	rs6961677
Chromosome Location	chr7:86403211-86403212
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10246519	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs10254088	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10274631	0.92[AFR][1000 genomes]
rs10277739	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs10280549	0.81[CHB][hapmap];0.92[JPT][hapmap]
rs10487052	0.86[CEU][hapmap];0.81[CHB][hapmap];0.83[EUR][1000 genomes]
rs12690900	0.83[EUR][1000 genomes]
rs12704286	0.82[AFR][1000 genomes]
rs12704288	0.83[EUR][1000 genomes]
rs13231431	0.82[EUR][1000 genomes]
rs13237764	0.92[AFR][1000 genomes]
rs1468412	0.88[CHB][hapmap];0.92[JPT][hapmap]
rs2158786	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237548	0.83[AFR][1000 genomes]
rs2237553	0.92[AFR][1000 genomes]
rs2237554	0.92[AFR][1000 genomes]
rs2237555	0.92[AFR][1000 genomes]
rs2237558	0.90[AFR][1000 genomes]
rs2237561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237562	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs2250784	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2282965	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2299219	0.81[CHB][hapmap];0.92[JPT][hapmap]
rs2299226	0.81[CHB][hapmap]
rs6465084	0.83[EUR][1000 genomes]
rs6965999	0.83[EUR][1000 genomes]
rs6970642	0.83[EUR][1000 genomes]
rs720025	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs723630	0.86[CEU][hapmap];0.81[CHB][hapmap];0.81[EUR][1000 genomes]
rs723631	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs727989	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs7341512	0.82[CEU][hapmap]
rs757656	0.92[AFR][1000 genomes]
rs7804907	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs7806785	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs917071	0.83[AFR][1000 genomes]
rs982339	0.86[CEU][hapmap];0.81[CHB][hapmap];0.81[EUR][1000 genomes]

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	nsv1025032	chr7:86032479-86642973	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv831053	chr7:86268171-86440999	Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1025277	chr7:86299224-87206007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS 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	90 gene(s)	inside rSNPs	diseases
4	nsv538999	chr7:86299224-87206007	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
5	nsv532147	chr7:86299225-87121975	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:86392800-86405400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr7:86399000-86406800	Weak transcription	Brain Hippocampus Middle	brain
3	chr7:86399000-86415400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr7:86399200-86405000	Weak transcription	Brain Angular Gyrus	brain
5	chr7:86399200-86405200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr7:86399600-86405000	Weak transcription	Brain Anterior Caudate	brain
7	chr7:86399800-86415400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr7:86400400-86405400	Weak transcription	Brain Substantia Nigra	brain
9	chr7:86402200-86403400	Enhancers	GM12878-XiMat	blood
10	chr7:86403000-86403800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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