Variant report

Variant	rs6532239
Chromosome Location	chr4:91674460-91674461
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10856879	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[TSI][hapmap]
rs1114878	0.82[YRI][hapmap]
rs11722100	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11726340	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11730172	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11730314	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11731445	0.89[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11930189	0.82[YRI][hapmap]
rs11946210	0.92[CEU][hapmap];0.90[CHB][hapmap]
rs12503213	0.92[CEU][hapmap];0.90[CHB][hapmap];0.80[AMR][1000 genomes]
rs12503263	0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12510662	0.82[ASW][hapmap];0.95[LWK][hapmap];0.87[MKK][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes]
rs13138129	0.95[CHB][hapmap]
rs1377916	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1399417	0.85[CEU][hapmap];0.84[CHD][hapmap];0.87[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.83[MEX][hapmap];0.81[MKK][hapmap];0.83[ASN][1000 genomes]
rs1399418	0.85[CEU][hapmap];0.80[CHB][hapmap];0.82[CHD][hapmap];0.84[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.84[MEX][hapmap];0.82[MKK][hapmap]
rs1399419	0.89[YRI][hapmap]
rs1514733	0.93[LWK][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes]
rs1514742	0.90[CHB][hapmap];0.91[CHD][hapmap];0.93[JPT][hapmap]
rs1606752	0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.84[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17017488	0.96[YRI][hapmap];0.80[AFR][1000 genomes]
rs17184632	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17185779	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17186550	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17245295	0.89[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17245443	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap];0.87[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17245485	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17247544	0.92[CEU][hapmap];0.90[CHB][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs1828884	0.81[YRI][hapmap]
rs2168075	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2271592	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2870264	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3733451	0.85[CEU][hapmap];0.80[CHB][hapmap];0.82[CHD][hapmap];0.84[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.84[MEX][hapmap];0.81[YRI][hapmap];0.83[ASN][1000 genomes]
rs3733452	0.83[ASN][1000 genomes]
rs4423844	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4597790	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs55705817	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs59614972	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60986065	0.84[AMR][1000 genomes]
rs62313023	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62313024	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6532241	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.91[MEX][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6532242	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6532243	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6811504	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6835028	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6843193	0.96[YRI][hapmap];0.81[AFR][1000 genomes]
rs6850783	0.89[YRI][hapmap]
rs7658990	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs7661466	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7664025	0.95[CHB][hapmap];0.84[CHD][hapmap];0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs7665447	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[JPT][hapmap];0.96[YRI][hapmap]
rs7670480	0.92[CEU][hapmap];0.90[CHB][hapmap];0.93[JPT][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7683460	0.88[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap]
rs7687983	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7688114	1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[JPT][hapmap]
rs897086	0.88[ASN][1000 genomes]
rs897088	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs976483	0.89[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.93[JPT][hapmap];0.86[LWK][hapmap];0.91[MEX][hapmap];0.90[MKK][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931074	chr4:90970476-91753697	Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv534470	chr4:91342219-91842807	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv428766	chr4:91618397-91768647	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:91673200-91675000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr4:91673200-91675200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr4:91673600-91675200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr4:91673600-91675200	Enhancers	HUES64 Cell Line	embryonic stem cell
5	chr4:91673800-91674800	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr4:91673800-91675200	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr4:91673800-91675200	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr4:91673800-91678600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr4:91674200-91675000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr4:91674200-91675200	Enhancers	HUES6 Cell Line	embryonic stem cell

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