Variant report

Variant	rs9876664
Chromosome Location	chr3:85806313-85806314
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:85801802..85803723-chr3:85806304..85808705,2	MCF-7	breast:
2	chr3:85801276..85804011-chr3:85805861..85807546,2	MCF-7	breast:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10511067	0.82[CEU][hapmap]
rs10511068	0.82[CEU][hapmap]
rs11127905	0.90[JPT][hapmap]
rs11127908	0.80[CEU][hapmap]
rs11711972	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11926422	0.82[CEU][hapmap]
rs12494196	0.90[JPT][hapmap]
rs12495178	0.82[CEU][hapmap]
rs1375218	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs1375219	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1448607	1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs1448613	0.81[CEU][hapmap]
rs1448614	0.85[CEU][hapmap]
rs1448616	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs17334733	0.90[JPT][hapmap]
rs2029051	0.90[JPT][hapmap]
rs2029052	0.90[JPT][hapmap]
rs2029053	0.90[JPT][hapmap]
rs2044654	1.00[JPT][hapmap]
rs2325036	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap]
rs2325037	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2875529	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3901898	0.94[CHB][hapmap];0.82[JPT][hapmap]
rs3930071	0.82[JPT][hapmap]
rs4302392	0.90[JPT][hapmap]
rs4305433	0.80[JPT][hapmap]
rs4435654	0.80[JPT][hapmap]
rs4488844	0.82[JPT][hapmap]
rs4504176	0.87[ASN][1000 genomes]
rs4555536	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4555539	0.82[JPT][hapmap]
rs4618235	0.89[JPT][hapmap]
rs4856279	0.88[CHB][hapmap]
rs4856606	0.80[CHB][hapmap]
rs6549054	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6549055	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6787851	0.81[CEU][hapmap]
rs6787901	0.82[JPT][hapmap]
rs6796380	0.82[JPT][hapmap]
rs6796402	0.80[CHB][hapmap];0.81[JPT][hapmap]
rs6799453	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7431895	0.81[CEU][hapmap]
rs7611409	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7612371	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7621146	0.81[CHB][hapmap]
rs7624423	0.90[JPT][hapmap]
rs7637221	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs7638774	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7642281	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs7653470	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9309992	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs9681744	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9820133	0.90[JPT][hapmap]
rs9820262	0.90[JPT][hapmap]
rs9836755	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9843797	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9844720	0.89[JPT][hapmap]
rs9864042	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9881886	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[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	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
2	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
3	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
4	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv460753	chr3:85789007-85820416	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv590911	chr3:85789007-85820416	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85801200-85815000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:85805000-85810000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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