Variant report

Variant	rs10059709
Chromosome Location	chr5:58525496-58525497
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10036406	0.88[CHB][hapmap];0.92[JPT][hapmap];0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10038599	0.88[CHB][hapmap];0.92[JPT][hapmap]
rs10055446	0.88[CHB][hapmap];0.92[JPT][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10056754	1.00[LWK][hapmap]
rs10061600	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10061786	0.88[CHB][hapmap]
rs10062176	1.00[LWK][hapmap]
rs10064893	1.00[ASW][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10068836	0.88[CHB][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10070294	0.88[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap]
rs10070436	0.88[CHB][hapmap];0.92[JPT][hapmap];0.90[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10440630	0.81[CHD][hapmap]
rs11738043	1.00[ASW][hapmap]
rs11740402	1.00[ASW][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11747413	0.88[CHB][hapmap];0.81[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13328160	1.00[ASW][hapmap];0.88[CHB][hapmap];0.89[CHD][hapmap];0.85[GIH][hapmap];1.00[LWK][hapmap]
rs13328226	1.00[ASW][hapmap];0.88[CHB][hapmap];0.89[CHD][hapmap];0.85[GIH][hapmap];1.00[LWK][hapmap]
rs13356883	1.00[ASW][hapmap]
rs13360907	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17444059	0.88[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[LWK][hapmap]
rs17528257	0.88[CHB][hapmap];0.91[EUR][1000 genomes]
rs17528285	0.88[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17528473	1.00[ASW][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[LWK][hapmap]
rs17780213	1.00[LWK][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap]
rs2112959	0.88[CHB][hapmap];0.89[CHD][hapmap];0.85[GIH][hapmap];1.00[LWK][hapmap]
rs28647633	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs57516309	0.81[AMR][1000 genomes]
rs60453299	0.90[AMR][1000 genomes]
rs6881054	0.88[CHB][hapmap]
rs72765932	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72765942	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72765993	0.81[AMR][1000 genomes]
rs9292201	0.82[GIH][hapmap]
rs9292206	1.00[ASW][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830363	chr5:57893949-58555491	Weak transcription Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1023570	chr5:58486384-58537849	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv598252	chr5:58487764-58618889	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv881703	chr5:58517918-58540847	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1025807	chr5:58520050-58548231	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv520721	chr5:58520735-58558388	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10059709	IPO11	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58512800-58532400	Weak transcription	Pancreas	Pancrea
2	chr5:58516000-58530600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr5:58516200-58531000	Weak transcription	Psoas Muscle	Psoas
4	chr5:58518400-58527000	Weak transcription	Fetal Heart	heart
5	chr5:58519200-58535000	Weak transcription	Left Ventricle	heart
6	chr5:58519400-58529600	Weak transcription	Rectal Smooth Muscle	rectum
7	chr5:58520800-58537000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr5:58521400-58532800	Weak transcription	Hela-S3	cervix
9	chr5:58522800-58526000	Weak transcription	A549	lung
10	chr5:58523400-58526800	Weak transcription	Colon Smooth Muscle	Colon

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