Variant report

Variant	rs3001860
Chromosome Location	chr10:52427942-52427943
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs12241969	0.81[ASN][1000 genomes]
rs12572578	0.86[ASN][1000 genomes]
rs13376734	0.84[EUR][1000 genomes]
rs3001853	0.86[EUR][1000 genomes]
rs3001855	0.85[EUR][1000 genomes]
rs3001856	0.86[EUR][1000 genomes]
rs3001857	0.86[EUR][1000 genomes]
rs3001858	0.90[EUR][1000 genomes]
rs3001859	0.91[EUR][1000 genomes]
rs3001861	0.91[EUR][1000 genomes]
rs3001864	0.90[EUR][1000 genomes]
rs3001865	0.85[EUR][1000 genomes]
rs3001866	0.89[EUR][1000 genomes]
rs3001867	0.90[EUR][1000 genomes]
rs3001884	0.84[EUR][1000 genomes]
rs3011728	0.91[EUR][1000 genomes]
rs3011729	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3011730	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3011731	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3011738	0.88[EUR][1000 genomes]
rs3011739	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3011752	0.86[EUR][1000 genomes]
rs55703887	0.82[ASN][1000 genomes]
rs55928478	0.90[ASN][1000 genomes]
rs56039956	0.86[ASN][1000 genomes]
rs56153288	0.86[EUR][1000 genomes]
rs56266445	0.86[EUR][1000 genomes]
rs57025029	0.83[EUR][1000 genomes]
rs57253864	0.84[ASN][1000 genomes]
rs57496569	0.82[ASN][1000 genomes]
rs57574235	0.84[ASN][1000 genomes]
rs61027189	0.82[ASN][1000 genomes]
rs61518314	0.82[ASN][1000 genomes]
rs61615406	0.82[ASN][1000 genomes]
rs67094247	0.84[EUR][1000 genomes]
rs7067608	0.86[EUR][1000 genomes]
rs7074349	0.84[EUR][1000 genomes]
rs7077555	0.84[EUR][1000 genomes]
rs7078586	0.83[EUR][1000 genomes]
rs7096920	0.84[EUR][1000 genomes]
rs72787008	0.86[EUR][1000 genomes]
rs72803755	0.83[EUR][1000 genomes]
rs73320899	0.89[ASN][1000 genomes]
rs7897345	0.84[EUR][1000 genomes]
rs7904446	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv895393	chr10:52413720-52530819	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv948007	chr10:52414948-52500270	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv8662	chr10:52416662-52461079	Flanking Active TSS Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3001860	FLJ31958	N/A	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52420000-52434200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:52427600-52430800	Weak transcription	Primary neutrophils fromperipheralblood	blood

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