Variant report

Variant	rs9870721
Chromosome Location	chr3:155370583-155370584
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10212594	1.00[CEU][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs1072140	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs11707005	1.00[CEU][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs12107115	0.85[CEU][hapmap];0.91[MEX][hapmap]
rs12330573	0.87[EUR][1000 genomes]
rs12633252	0.87[EUR][1000 genomes]
rs12637360	0.85[CEU][hapmap]
rs12638480	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs13314098	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs13317911	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs13321123	0.85[EUR][1000 genomes]
rs13326969	0.83[CEU][hapmap]
rs13327502	1.00[CEU][hapmap]
rs1401693	0.87[EUR][1000 genomes]
rs16825206	0.84[CHD][hapmap];0.86[JPT][hapmap]
rs16825229	0.84[CEU][hapmap];0.94[GIH][hapmap];0.81[TSI][hapmap]
rs16825256	0.84[CEU][hapmap]
rs17411990	0.84[CEU][hapmap]
rs1850847	1.00[CEU][hapmap];0.80[CHB][hapmap];0.84[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.87[EUR][1000 genomes]
rs2090577	0.87[EUR][1000 genomes]
rs2304406	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs2320187	0.87[EUR][1000 genomes]
rs4425301	1.00[CEU][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes]
rs4679751	1.00[CEU][hapmap]
rs4680193	1.00[CEU][hapmap];0.84[JPT][hapmap];0.86[EUR][1000 genomes]
rs4680195	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs4680197	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[TSI][hapmap]
rs4680202	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs4680206	1.00[CEU][hapmap];0.84[JPT][hapmap];0.82[YRI][hapmap];0.90[EUR][1000 genomes]
rs4680207	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes]
rs6783986	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs6787497	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6795967	0.83[CEU][hapmap]
rs6802895	1.00[CEU][hapmap];0.80[CHB][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs6804318	0.85[CEU][hapmap]
rs6806216	0.92[CEU][hapmap]
rs6807243	0.84[CEU][hapmap];0.91[GIH][hapmap]
rs6808145	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[EUR][1000 genomes]
rs7637459	0.84[CEU][hapmap];0.91[GIH][hapmap]
rs7644232	1.00[CEU][hapmap];0.82[JPT][hapmap];0.87[EUR][1000 genomes]
rs884338	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs925967	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs925968	0.87[EUR][1000 genomes]
rs932207	1.00[CEU][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs932208	1.00[CEU][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs9811329	0.86[JPT][hapmap]
rs9814642	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9823723	1.00[CEU][hapmap];0.84[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs9838305	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs9840447	0.84[CEU][hapmap];0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs9851365	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs9852886	0.87[EUR][1000 genomes]
rs9854228	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9866635	0.84[CEU][hapmap]
rs9867144	0.87[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009618	chr3:155370034-155492177	Flanking Active TSS Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	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
rs9870721	KPNA4	cis	parietal	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155357400-155379000	Weak transcription	Gastric	stomach
2	chr3:155365400-155375000	Weak transcription	Fetal Thymus	thymus
3	chr3:155365400-155375000	Weak transcription	Thymus	Thymus
4	chr3:155366600-155379000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:155366600-155379000	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:155367400-155376800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:155368600-155370600	Enhancers	Stomach Mucosa	stomach
8	chr3:155369800-155370600	Enhancers	Brain Anterior Caudate	brain
9	chr3:155369800-155370600	Enhancers	Pancreatic Islets	Pancreatic Islet
10	chr3:155370000-155370800	Enhancers	Fetal Stomach	stomach
11	chr3:155370200-155374200	Weak transcription	A549	lung

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