Variant report

Variant	rs9827598
Chromosome Location	chr3:85753619-85753620
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1037231	0.84[CEU][hapmap];0.89[CHB][hapmap];0.83[JPT][hapmap]
rs12639137	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13060858	0.83[CHB][hapmap]
rs1375215	0.85[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap]
rs1448599	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1448600	0.85[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17334678	0.85[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2325026	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4423783	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4452341	0.82[CEU][hapmap];0.89[EUR][1000 genomes]
rs4553985	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6549051	0.83[CEU][hapmap];0.83[CHB][hapmap];0.89[JPT][hapmap]
rs6785531	0.90[EUR][1000 genomes]
rs6800957	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6807339	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73147228	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7612090	1.00[CEU][hapmap];1.00[CHB][hapmap];0.80[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7623480	0.81[CEU][hapmap];0.90[EUR][1000 genomes]
rs7648093	0.85[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs921230	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9846229	0.85[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap]
rs9883807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs9883919	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1005102	chr3:85729640-85829412	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85753200-85756800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:85753200-85756800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr3:85753200-85756800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr3:85753200-85757000	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr3:85753400-85754400	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:85753600-85753800	Enhancers	Brain Angular Gyrus	brain
7	chr3:85753600-85753800	Enhancers	Brain Cingulate Gyrus	brain
8	chr3:85753600-85758600	Weak transcription	Brain Hippocampus Middle	brain

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