Variant report

Variant	rs59446249
Chromosome Location	chr13:98150258-98150259
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:98149109..98152096-chr17:57919592..57922108,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs13378494	0.83[EUR][1000 genomes]
rs16954162	0.83[EUR][1000 genomes]
rs184730	1.00[EUR][1000 genomes]
rs187012	1.00[EUR][1000 genomes]
rs2026686	0.81[EUR][1000 genomes]
rs2769284	1.00[EUR][1000 genomes]
rs2769285	1.00[EUR][1000 genomes]
rs2769286	0.95[EUR][1000 genomes]
rs2769288	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2769290	1.00[EUR][1000 genomes]
rs2770217	1.00[EUR][1000 genomes]
rs2770218	1.00[EUR][1000 genomes]
rs2770223	1.00[EUR][1000 genomes]
rs2770224	0.95[EUR][1000 genomes]
rs2770228	1.00[EUR][1000 genomes]
rs349112	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs349113	1.00[EUR][1000 genomes]
rs349117	1.00[EUR][1000 genomes]
rs349118	1.00[EUR][1000 genomes]
rs349119	1.00[EUR][1000 genomes]
rs349122	1.00[EUR][1000 genomes]
rs349124	1.00[EUR][1000 genomes]
rs349125	1.00[EUR][1000 genomes]
rs349126	1.00[EUR][1000 genomes]
rs381224	0.85[EUR][1000 genomes]
rs384217	1.00[EUR][1000 genomes]
rs471754	1.00[EUR][1000 genomes]
rs55694844	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56057629	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57104501	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57491525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60500694	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs6491353	0.81[AFR][1000 genomes]
rs7318655	0.83[EUR][1000 genomes]
rs7331217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7331520	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7331537	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7335777	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73564120	0.83[EUR][1000 genomes]
rs73564126	0.83[EUR][1000 genomes]
rs73564135	0.83[EUR][1000 genomes]
rs73564148	0.83[EUR][1000 genomes]
rs74105496	0.95[EUR][1000 genomes]
rs74105498	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74108409	0.94[EUR][1000 genomes]
rs787468	1.00[EUR][1000 genomes]
rs805111	0.95[EUR][1000 genomes]
rs9300418	1.00[EUR][1000 genomes]
rs9300424	1.00[EUR][1000 genomes]
rs9582136	0.83[EUR][1000 genomes]
rs9582137	0.83[EUR][1000 genomes]
rs9582141	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9582144	0.83[EUR][1000 genomes]
rs9584588	0.99[AFR][1000 genomes]
rs9584592	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9584595	0.83[EUR][1000 genomes]
rs9584596	0.83[EUR][1000 genomes]
rs9584597	1.00[EUR][1000 genomes]
rs9584598	0.83[EUR][1000 genomes]
rs9584599	0.83[EUR][1000 genomes]
rs9584615	0.83[EUR][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	nsv1139	chr13:98133793-98178130	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv1043113	chr13:98136208-98485012	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv541884	chr13:98136208-98485012	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:98146000-98150400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr13:98147400-98154400	Weak transcription	Right Atrium	heart
3	chr13:98147600-98150600	Enhancers	Fetal Stomach	stomach
4	chr13:98147800-98151200	Enhancers	HepG2	liver
5	chr13:98148000-98153800	Weak transcription	Fetal Muscle Leg	muscle
6	chr13:98149000-98150400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr13:98149200-98154200	Weak transcription	Fetal Lung	lung
8	chr13:98149200-98156400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr13:98149400-98154000	Weak transcription	Placenta	Placenta
10	chr13:98149800-98151600	Enhancers	Fetal Intestine Small	intestine
11	chr13:98150000-98150400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr13:98150200-98151400	Enhancers	Fetal Intestine Large	intestine

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