Variant report

Variant	rs9389979
Chromosome Location	chr6:142576802-142576803
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:52209145..52211139-chr6:142575953..142578356,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171940	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs11757046	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11758623	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs11759498	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17789170	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs178783	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225604	0.81[JPT][hapmap]
rs225605	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225606	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225618	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs225620	0.81[JPT][hapmap]
rs225622	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225623	0.82[JPT][hapmap]
rs225624	0.81[JPT][hapmap]
rs225629	0.82[JPT][hapmap]
rs225630	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225631	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225632	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225633	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225634	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225635	0.89[CHB][hapmap];0.81[JPT][hapmap]
rs225639	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225641	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225642	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225643	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225652	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225653	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225654	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225656	0.81[JPT][hapmap]
rs225657	0.81[JPT][hapmap]
rs225658	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225659	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs225660	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225662	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225663	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225665	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225666	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225671	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225673	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225674	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225675	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225676	0.90[CHB][hapmap]
rs225677	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs225678	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs225679	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225684	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs225685	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs225687	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225688	0.81[JPT][hapmap]
rs225689	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs225695	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225700	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225701	0.89[CHB][hapmap]
rs225702	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs225710	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs56061113	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62430517	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62430518	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62430519	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs628311	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs639658	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs9321861	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9389980	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9389981	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9399397	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403376	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5511	chr6:142550032-142594960	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142575000-142577600	Enhancers	Fetal Intestine Small	intestine
2	chr6:142575200-142580200	Enhancers	HepG2	liver
3	chr6:142575600-142578600	Enhancers	Liver	Liver
4	chr6:142576000-142580600	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:142576400-142579800	Weak transcription	Fetal Intestine Large	intestine
6	chr6:142576600-142577400	Enhancers	Primary hematopoietic stem cells short term culture	blood
7	chr6:142576600-142577600	Enhancers	Primary hematopoietic stem cells	blood
8	chr6:142576600-142577600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr6:142576800-142577000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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