Variant report

Variant	rs13439910
Chromosome Location	chr9:85985850-85985851
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	chr9:85985180..85988135-chr9:86151816..86155066,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172159	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10441792	0.96[CEU][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10512140	0.91[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs10746700	0.89[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10746701	0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10746702	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10746703	1.00[CEU][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10780596	1.00[CEU][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10780597	0.92[EUR][1000 genomes]
rs10780601	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[LWK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10867995	0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10867998	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10867999	1.00[CEU][hapmap];0.89[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10868000	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10868001	1.00[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11140040	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11140041	1.00[CEU][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11140045	1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11140046	1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11140054	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11140056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348065	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12350022	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12352281	0.85[YRI][hapmap]
rs13300839	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1536888	1.00[CEU][hapmap];0.89[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1536889	1.00[CEU][hapmap];0.92[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1556149	0.82[CEU][hapmap]
rs2375886	0.82[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34767126	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35469709	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35498149	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3860903	0.82[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3915916	1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4877252	0.89[JPT][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4877253	1.00[CEU][hapmap];0.94[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62560269	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7851145	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046491	chr9:85861492-86063992	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:85937400-85998000	Weak transcription	Aorta	Aorta
2	chr9:85956200-85986600	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr9:85958200-86007600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr9:85977000-85990200	Weak transcription	Right Ventricle	heart
5	chr9:85977400-85994600	Weak transcription	Pancreas	Pancrea
6	chr9:85977600-85990000	Weak transcription	Spleen	Spleen
7	chr9:85981000-85997800	Weak transcription	Left Ventricle	heart
8	chr9:85982000-85987000	Weak transcription	Fetal Muscle Leg	muscle
9	chr9:85982200-85987800	Weak transcription	HepG2	liver
10	chr9:85982400-85987400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:85982400-85987600	Weak transcription	Fetal Stomach	stomach
12	chr9:85982600-85998800	Weak transcription	Ovary	ovary
13	chr9:85983000-85998400	Weak transcription	Fetal Brain Male	brain

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