Variant report

Variant	rs9579439
Chromosome Location	chr13:30222006-30222007
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:30214449..30216128-chr13:30220444..30222656,3	MCF-7	breast:

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10220050	1.00[ASN][1000 genomes]
rs10220112	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10492457	1.00[ASN][1000 genomes]
rs12853894	1.00[ASN][1000 genomes]
rs12864282	1.00[ASN][1000 genomes]
rs12865724	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12866411	1.00[ASN][1000 genomes]
rs12868072	1.00[ASN][1000 genomes]
rs12872620	1.00[ASN][1000 genomes]
rs12872872	1.00[ASN][1000 genomes]
rs12873674	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12877965	1.00[ASN][1000 genomes]
rs13378570	1.00[ASN][1000 genomes]
rs17587218	1.00[ASN][1000 genomes]
rs2036973	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2669038	1.00[ASN][1000 genomes]
rs3011607	1.00[ASN][1000 genomes]
rs34117941	1.00[ASN][1000 genomes]
rs34148142	1.00[ASN][1000 genomes]
rs34220342	1.00[ASN][1000 genomes]
rs34492142	1.00[ASN][1000 genomes]
rs34967062	1.00[ASN][1000 genomes]
rs34973257	1.00[ASN][1000 genomes]
rs34978805	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35033033	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35227498	1.00[ASN][1000 genomes]
rs35566813	1.00[ASN][1000 genomes]
rs35569918	1.00[ASN][1000 genomes]
rs35809262	1.00[ASN][1000 genomes]
rs35820783	1.00[ASN][1000 genomes]
rs35901321	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs478085	1.00[ASN][1000 genomes]
rs555913	1.00[ASN][1000 genomes]
rs71427274	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs71427278	1.00[ASN][1000 genomes]
rs71427279	1.00[ASN][1000 genomes]
rs71427280	1.00[ASN][1000 genomes]
rs71434735	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71434744	1.00[ASN][1000 genomes]
rs71434746	1.00[ASN][1000 genomes]
rs7320198	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73454227	1.00[ASN][1000 genomes]
rs7986326	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7991247	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7991463	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7992028	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7992839	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7998704	1.00[ASN][1000 genomes]
rs9314960	1.00[ASN][1000 genomes]
rs9314961	1.00[ASN][1000 genomes]
rs9314962	1.00[ASN][1000 genomes]
rs9314964	1.00[AFR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9314968	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9578108	1.00[ASN][1000 genomes]
rs9578110	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9578112	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9578118	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578121	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578122	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578123	1.00[ASN][1000 genomes]
rs9578125	0.85[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578127	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9578128	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9578130	1.00[ASN][1000 genomes]
rs9578131	1.00[ASN][1000 genomes]
rs9578133	1.00[ASN][1000 genomes]
rs9578134	1.00[ASN][1000 genomes]
rs9579405	1.00[ASN][1000 genomes]
rs9579406	1.00[ASN][1000 genomes]
rs9579407	1.00[ASN][1000 genomes]
rs9579408	1.00[ASN][1000 genomes]
rs9579410	1.00[ASN][1000 genomes]
rs9579411	1.00[ASN][1000 genomes]
rs9579413	1.00[ASN][1000 genomes]
rs9579414	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579417	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579418	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579419	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579424	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579425	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579428	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9579440	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579442	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579445	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579446	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579447	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579449	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs9579451	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579454	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579455	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579457	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579459	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579462	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579463	0.85[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579464	1.00[ASN][1000 genomes]
rs9579465	1.00[ASN][1000 genomes]
rs9579466	1.00[ASN][1000 genomes]
rs9579468	1.00[ASN][1000 genomes]
rs9579470	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528336	chr13:30194288-30226498	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv980	chr13:30200197-30236915	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv510577	chr13:30213612-30254316	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv3422004	chr13:30214852-30223050	Weak transcription Active TSS Bivalent/Poised TSS Enhancers Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	esv2638055	chr13:30215014-30222317	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv512309	chr13:30215342-30222103	Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	esv995490	chr13:30215547-30222199	Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	esv3411541	chr13:30215611-30222201	Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	esv2273790	chr13:30215662-30222034	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	esv3519856	chr13:30215720-30223264	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	esv3522108	chr13:30215757-30223218	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv436162	chr13:30215767-30222435	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv435641	chr13:30215808-30222084	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	esv3519857	chr13:30215829-30223185	Active TSS Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	esv3522119	chr13:30215829-30223185	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	nsv498808	chr13:30215837-30228124	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
17	esv3449679	chr13:30216652-30223050	Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30220800-30226800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr13:30221600-30222200	Active TSS	H1 Cell Line	embryonic stem cell
3	chr13:30221600-30222400	Active TSS	HUES6 Cell Line	embryonic stem cell
4	chr13:30221600-30222400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr13:30221600-30222600	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr13:30221600-30222800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr13:30221600-30222800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr13:30221800-30222200	Active TSS	iPS-15b Cell Line	embryonic stem cell
9	chr13:30221800-30222200	Active TSS	iPS-18 Cell Line	embryonic stem cell
10	chr13:30221800-30222200	Active TSS	Fetal Thymus	thymus
11	chr13:30221800-30222400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:30221800-30223000	Active TSS	Primary T cells fromperipheralblood	blood
13	chr13:30222000-30222400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
14	chr13:30222000-30222600	Weak transcription	Primary T cells from cord blood	blood

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