Variant report

Variant	rs9579440
Chromosome Location	chr13:30230978-30230979
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	chr13:30167314..30169877-chr13:30230772..30232474,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000139514	Chromatin interaction

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10220050	1.00[ASN][1000 genomes]
rs10220112	1.00[ASN][1000 genomes]
rs10492457	1.00[ASN][1000 genomes]
rs12853894	0.80[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs12864282	1.00[ASN][1000 genomes]
rs12865724	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12866411	0.89[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs12868072	1.00[ASN][1000 genomes]
rs12872620	1.00[ASN][1000 genomes]
rs12872872	1.00[ASN][1000 genomes]
rs12873674	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12877965	0.80[CEU][hapmap];1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs13378570	1.00[ASN][1000 genomes]
rs17587218	1.00[ASN][1000 genomes]
rs2036973	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[ASN][1000 genomes]
rs35033033	0.86[AFR][1000 genomes];1.00[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]
rs35587642	0.85[AFR][1000 genomes]
rs35809262	1.00[ASN][1000 genomes]
rs35820783	1.00[ASN][1000 genomes]
rs35901321	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs478085	1.00[ASN][1000 genomes]
rs555913	1.00[ASN][1000 genomes]
rs71427274	1.00[ASN][1000 genomes]
rs71427278	1.00[ASN][1000 genomes]
rs71427279	1.00[ASN][1000 genomes]
rs71427280	1.00[ASN][1000 genomes]
rs71434735	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71434744	1.00[ASN][1000 genomes]
rs71434746	1.00[ASN][1000 genomes]
rs7320198	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73454227	1.00[ASN][1000 genomes]
rs7986326	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7991247	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs7991463	1.00[ASN][1000 genomes]
rs7992028	1.00[ASN][1000 genomes]
rs7992839	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	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9314968	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9578108	1.00[ASN][1000 genomes]
rs9578110	1.00[ASN][1000 genomes]
rs9578112	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9578114	1.00[YRI][hapmap]
rs9578118	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578121	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578122	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578123	1.00[ASN][1000 genomes]
rs9578125	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9578127	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9578128	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9578130	1.00[ASN][1000 genomes]
rs9578131	1.00[ASN][1000 genomes]
rs9578133	0.89[CEU][hapmap];1.00[YRI][hapmap];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[ASN][1000 genomes]
rs9579417	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9579418	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9579419	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9579424	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9579425	1.00[ASN][1000 genomes]
rs9579428	1.00[YRI][hapmap];1.00[ASN][1000 genomes]
rs9579439	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579442	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579445	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579446	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579447	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579449	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9579451	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579454	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579455	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9579457	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579459	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579462	0.93[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs9579463	0.93[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:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	nsv899961	chr13:30226924-30407273	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30222800-30232800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr13:30222800-30232800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr13:30228400-30233800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr13:30230000-30231000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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