Variant report

Variant	rs9380787
Chromosome Location	chr6:38820599-38820600
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	chr6:38819628..38821796-chr6:38823200..38825127,2	MCF-7	breast:

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs1008227	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1018437	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1564377	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1629877	0.88[EUR][1000 genomes]
rs1678640	0.89[ASN][1000 genomes]
rs1678690	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1678691	0.80[EUR][1000 genomes]
rs1678692	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1678693	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1678694	0.81[EUR][1000 genomes]
rs1678695	0.88[EUR][1000 genomes]
rs1678696	0.88[EUR][1000 genomes]
rs1678697	0.88[EUR][1000 genomes]
rs1678698	0.88[EUR][1000 genomes]
rs1678699	0.88[EUR][1000 genomes]
rs1678700	0.88[EUR][1000 genomes]
rs1678701	0.87[EUR][1000 genomes]
rs1678702	0.87[EUR][1000 genomes]
rs1678703	0.85[EUR][1000 genomes]
rs1678706	0.88[EUR][1000 genomes]
rs1678707	0.88[EUR][1000 genomes]
rs1678708	0.87[EUR][1000 genomes]
rs1678709	0.88[EUR][1000 genomes]
rs1678712	0.88[EUR][1000 genomes]
rs1678717	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1678718	0.83[ASN][1000 genomes]
rs1678725	0.83[ASN][1000 genomes]
rs1678742	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1738184	0.94[ASN][1000 genomes]
rs1738192	0.87[ASN][1000 genomes]
rs1738199	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1738203	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1738211	0.88[EUR][1000 genomes]
rs1738212	0.88[EUR][1000 genomes]
rs1738215	0.88[EUR][1000 genomes]
rs1738216	0.88[EUR][1000 genomes]
rs1738217	0.87[EUR][1000 genomes]
rs1738218	0.86[EUR][1000 genomes]
rs1738219	0.85[EUR][1000 genomes]
rs1738220	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1738221	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2061907	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2179711	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2179712	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2179713	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35696175	0.84[ASN][1000 genomes]
rs4380739	0.84[ASN][1000 genomes]
rs4443498	0.84[ASN][1000 genomes]
rs4501424	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4711558	0.84[ASN][1000 genomes]
rs4711559	0.84[ASN][1000 genomes]
rs6458073	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6458074	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6458075	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6458076	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6458077	0.91[EUR][1000 genomes]
rs6458078	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6458079	0.84[ASN][1000 genomes]
rs6458080	0.84[ASN][1000 genomes]
rs6919465	0.88[EUR][1000 genomes]
rs6928952	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6934064	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7746153	0.84[ASN][1000 genomes]
rs7748684	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7757460	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7772148	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9296265	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9349100	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9366982	0.84[ASN][1000 genomes]
rs9369085	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9369087	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9380788	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9380789	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9380795	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9394544	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9394545	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs982705	0.86[ASN][1000 genomes]
rs984524	0.88[EUR][1000 genomes]
rs984525	0.88[EUR][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	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv830643	chr6:38726675-38905589	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38766800-38824400	Weak transcription	K562	blood
2	chr6:38804600-38821000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr6:38812600-38821000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:38819600-38820600	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr6:38819800-38821200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:38820000-38820800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:38820000-38821000	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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