Variant report

Variant	rs10254088
Chromosome Location	chr7:86409200-86409201
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10246519	0.89[CEU][hapmap];0.86[CHB][hapmap];0.89[EUR][1000 genomes]
rs10266758	0.86[CHB][hapmap]
rs10277739	0.93[CHB][hapmap]
rs10280549	0.85[CHB][hapmap];0.87[JPT][hapmap]
rs10487052	0.88[CEU][hapmap];0.92[CHB][hapmap];0.89[EUR][1000 genomes]
rs12690900	0.89[EUR][1000 genomes]
rs12704288	0.89[EUR][1000 genomes]
rs13231431	0.89[EUR][1000 genomes]
rs1468412	0.93[CHB][hapmap];0.89[JPT][hapmap]
rs1468413	0.85[CHB][hapmap]
rs2158786	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237561	0.89[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237562	0.93[CHB][hapmap];0.87[JPT][hapmap]
rs2250784	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2282965	0.88[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]
rs2299219	0.85[CHB][hapmap];0.87[JPT][hapmap]
rs2299226	0.92[CHB][hapmap]
rs6465084	0.89[EUR][1000 genomes]
rs6961677	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]
rs6965999	0.89[EUR][1000 genomes]
rs6970642	0.89[EUR][1000 genomes]
rs720025	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs723630	0.88[CEU][hapmap];0.92[CHB][hapmap];0.88[EUR][1000 genomes]
rs723631	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs727989	0.89[CEU][hapmap];0.86[CHB][hapmap];0.89[EUR][1000 genomes]
rs7341512	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs7804907	0.93[CHB][hapmap];0.87[JPT][hapmap]
rs7806785	0.93[CHB][hapmap];0.86[JPT][hapmap]
rs970186	0.86[CHB][hapmap]
rs982339	0.88[CEU][hapmap];0.92[CHB][hapmap];0.87[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:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:86399000-86415400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr7:86399800-86415400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr7:86403400-86412600	Weak transcription	GM12878-XiMat	blood
4	chr7:86405800-86413000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr7:86406400-86416200	Weak transcription	Fetal Heart	heart
6	chr7:86406800-86413200	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr7:86407800-86410000	Weak transcription	Brain Anterior Caudate	brain
8	chr7:86408000-86410000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr7:86408000-86415600	Weak transcription	Fetal Brain Female	brain
10	chr7:86408400-86409800	Weak transcription	Brain Hippocampus Middle	brain
11	chr7:86408400-86413600	Weak transcription	Brain Substantia Nigra	brain
12	chr7:86408600-86409800	Weak transcription	Brain Angular Gyrus	brain

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