Variant report

Variant	rs4946566
Chromosome Location	chr6:121674378-121674379
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr6:121673935-121674556	Hela-S3	cervix:	n/a	chr6:121674510-121674523
2	EP300	chr6:121674170-121674417	Hela-S3	cervix:	n/a	chr6:121674311-121674321

Variant related genes	Relation type
RNU6-1286P	TF binding region

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10499102	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10499103	0.88[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10499107	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10499108	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10499110	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083268	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs17083302	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs17083356	1.00[ASW][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083358	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs17083360	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083375	1.00[ASW][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083385	1.00[ASW][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083389	1.00[ASW][hapmap];0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083397	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs17083405	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083417	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083420	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs17083421	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs17083432	0.89[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs17083435	0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3923664	0.84[ASN][1000 genomes]
rs4144169	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4245508	0.88[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4441982	0.82[ASN][1000 genomes]
rs4458731	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4487619	0.82[ASN][1000 genomes]
rs4580906	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4585597	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4945683	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4946549	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs4946555	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs4946556	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs4946557	0.81[JPT][hapmap]
rs4946560	0.89[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs4946561	0.84[ASN][1000 genomes]
rs4946564	0.97[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4946567	1.00[ASW][hapmap];0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61550917	0.84[ASN][1000 genomes]
rs6569184	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6907975	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6920459	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6930191	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7452947	0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap]
rs9387932	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023384	chr6:121235867-121683448	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv830789	chr6:121581450-121732320	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv970057	chr6:121663325-121679145	Weak transcription Enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv519021	chr6:121671944-121677165	Enhancers Weak transcription	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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