Variant report

Variant	rs17493
Chromosome Location	chr3:59858865-59858866
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1084008	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs1385713	1.00[ASW][hapmap];0.82[GIH][hapmap];0.95[LWK][hapmap];0.88[MEX][hapmap];0.81[TSI][hapmap];0.86[YRI][hapmap];0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4679614	0.81[CEU][hapmap];0.89[GIH][hapmap]
rs587775	0.86[EUR][1000 genomes]
rs598678	0.87[CEU][hapmap];0.81[EUR][1000 genomes]
rs608582	0.84[EUR][1000 genomes]
rs621666	0.95[GIH][hapmap]
rs6446086	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs650247	0.84[EUR][1000 genomes]
rs662910	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs684753	0.87[CEU][hapmap];0.89[GIH][hapmap];0.86[EUR][1000 genomes]
rs687342	0.95[GIH][hapmap]
rs874238	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv460565	chr3:59842644-59877988	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv470616	chr3:59842644-59877988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv590385	chr3:59842644-59877988	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv590386	chr3:59846067-59912377	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59850000-59864000	Weak transcription	Fetal Thymus	thymus
2	chr3:59852800-59859800	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr3:59854800-59867000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr3:59854800-59870800	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr3:59855000-59865200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr3:59855600-59859400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr3:59856600-59859800	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr3:59856800-59860200	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr3:59857400-59859000	Genic enhancers	Primary T cells from cord blood	blood
10	chr3:59858000-59865800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr3:59858200-59859200	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr3:59858200-59859200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr3:59858200-59865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr3:59858600-59863000	Strong transcription	Dnd41	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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