Variant report

Variant	rs1009603
Chromosome Location	chr6:4484350-4484351
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1009602	0.93[ASN][1000 genomes]
rs1009604	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1011087	0.88[ASN][1000 genomes]
rs1011088	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1011089	0.83[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12525331	0.83[ASN][1000 genomes]
rs1265245	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1265250	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1265256	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1265259	0.88[ASN][1000 genomes]
rs1265260	0.86[ASN][1000 genomes]
rs13195445	0.88[ASN][1000 genomes]
rs1571630	0.88[ASN][1000 genomes]
rs2021989	0.86[ASN][1000 genomes]
rs2150231	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2181015	0.80[CHD][hapmap];0.82[JPT][hapmap]
rs2875945	0.86[ASN][1000 genomes]
rs3929704	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4246070	0.85[ASN][1000 genomes]
rs4959295	0.88[ASN][1000 genomes]
rs4959296	0.88[ASN][1000 genomes]
rs4959297	0.88[ASN][1000 genomes]
rs4959298	0.86[ASN][1000 genomes]
rs4959299	0.83[ASN][1000 genomes]
rs4959987	0.84[ASN][1000 genomes]
rs4959989	0.88[ASN][1000 genomes]
rs4959990	0.88[ASN][1000 genomes]
rs4959991	0.88[ASN][1000 genomes]
rs4959992	0.88[ASN][1000 genomes]
rs4959993	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs4959994	0.88[ASN][1000 genomes]
rs4959995	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4959997	1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs4959998	0.92[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs60221507	0.86[ASN][1000 genomes]
rs62384876	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6914063	0.92[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6930327	0.87[ASN][1000 genomes]
rs7450179	0.85[ASN][1000 genomes]
rs7452972	0.85[ASN][1000 genomes]
rs7453574	0.85[ASN][1000 genomes]
rs878780	0.83[AMR][1000 genomes]
rs911565	0.87[ASN][1000 genomes]
rs911566	0.85[ASN][1000 genomes]
rs911567	0.85[ASN][1000 genomes]
rs9378879	0.85[ASN][1000 genomes]
rs9378880	0.85[ASN][1000 genomes]
rs9378881	0.85[ASN][1000 genomes]
rs9378882	0.86[ASN][1000 genomes]
rs9378883	0.96[ASN][1000 genomes]
rs9392053	0.88[ASN][1000 genomes]
rs9392602	0.83[ASN][1000 genomes]
rs9392603	0.85[ASN][1000 genomes]
rs9405247	0.86[ASN][1000 genomes]
rs9405248	0.86[ASN][1000 genomes]
rs9405748	0.88[ASN][1000 genomes]
rs9502189	0.88[ASN][1000 genomes]
rs9504122	0.86[ASN][1000 genomes]
rs9504123	0.88[ASN][1000 genomes]
rs9504124	0.88[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	nsv1021743	chr6:4382308-4494308	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv538111	chr6:4382308-4494308	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	esv3421990	chr6:4446933-4659639	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv830576	chr6:4447554-4610604	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv970369	chr6:4481968-4554947	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1009603	DAD1	trans	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4481600-4484400	Weak transcription	Right Atrium	heart
2	chr6:4482600-4485200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:4483000-4485000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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