Variant report

Variant	rs62571033
Chromosome Location	chr9:15522390-15522391
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1057644	1.00[ASN][1000 genomes]
rs1057645	1.00[ASN][1000 genomes]
rs1057646	1.00[ASN][1000 genomes]
rs12001969	1.00[ASN][1000 genomes]
rs12002581	1.00[ASN][1000 genomes]
rs12003712	1.00[ASN][1000 genomes]
rs16933257	1.00[ASN][1000 genomes]
rs16933296	0.85[EUR][1000 genomes]
rs16933332	1.00[ASN][1000 genomes]
rs16933350	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1828382	0.81[EUR][1000 genomes]
rs3087653	0.90[EUR][1000 genomes]
rs41268961	0.90[EUR][1000 genomes]
rs41306098	0.90[EUR][1000 genomes]
rs55649599	0.84[EUR][1000 genomes]
rs57142629	0.81[EUR][1000 genomes]
rs57900433	1.00[ASN][1000 genomes]
rs58915725	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs59355275	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59520337	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62570969	0.85[EUR][1000 genomes]
rs62570970	0.80[EUR][1000 genomes]
rs62570971	0.80[EUR][1000 genomes]
rs62570972	0.85[EUR][1000 genomes]
rs62570973	0.80[EUR][1000 genomes]
rs62570974	0.80[EUR][1000 genomes]
rs62570975	0.80[EUR][1000 genomes]
rs62570976	0.85[EUR][1000 genomes]
rs62570980	0.90[EUR][1000 genomes]
rs62570991	0.90[EUR][1000 genomes]
rs62570992	0.90[EUR][1000 genomes]
rs62570993	0.90[EUR][1000 genomes]
rs62571001	0.85[EUR][1000 genomes]
rs62571002	0.85[EUR][1000 genomes]
rs62571003	0.87[EUR][1000 genomes]
rs62571007	0.90[EUR][1000 genomes]
rs62571008	0.87[EUR][1000 genomes]
rs62571009	0.90[EUR][1000 genomes]
rs62571011	0.90[EUR][1000 genomes]
rs62571015	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62571016	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62571017	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62571018	0.95[EUR][1000 genomes]
rs62571029	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62571031	0.84[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs62571032	0.81[EUR][1000 genomes]
rs62571037	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62571046	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62571047	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62571048	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62571050	0.92[EUR][1000 genomes]
rs62571051	0.90[EUR][1000 genomes]
rs62571052	0.87[EUR][1000 genomes]
rs7023730	0.81[EUR][1000 genomes]
rs7032720	1.00[ASN][1000 genomes]
rs72704750	1.00[ASN][1000 genomes]
rs73410238	0.84[AFR][1000 genomes]
rs73410242	0.84[AFR][1000 genomes]
rs73423305	1.00[ASN][1000 genomes]
rs7856486	1.00[ASN][1000 genomes]
rs7856523	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856657	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856710	0.81[EUR][1000 genomes]
rs7858863	1.00[ASN][1000 genomes]

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	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats 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	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS 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	21 gene(s)	inside rSNPs	diseases
6	nsv892629	chr9:15516375-15634326	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs62571033	PSIP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15521400-15523000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:15521800-15522400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr9:15521800-15522400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr9:15522000-15522600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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