Variant report

Variant	rs13092830
Chromosome Location	chr3:23363858-23363859
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:23360954..23362532-chr3:23363082..23365861,2	MCF-7	breast:

Extended variants
information (count: 120 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:115)

rs_ID	r²[population]
rs12106681	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13059155	0.89[EUR][1000 genomes]
rs13060112	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs13060251	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13063185	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs13063451	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs13063986	1.00[YRI][hapmap]
rs13065375	1.00[CEU][hapmap];1.00[YRI][hapmap];0.88[EUR][1000 genomes]
rs13066741	0.91[CEU][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes]
rs13067514	1.00[CEU][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13070136	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13072325	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[EUR][1000 genomes]
rs13073761	0.92[EUR][1000 genomes]
rs13076527	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13078970	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13083654	1.00[YRI][hapmap]
rs13084250	0.84[AMR][1000 genomes]
rs13084327	1.00[YRI][hapmap]
rs13085266	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13087234	1.00[YRI][hapmap]
rs13087238	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs13087563	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13090303	1.00[YRI][hapmap]
rs13090335	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes]
rs13090633	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13091634	0.88[EUR][1000 genomes]
rs13095736	1.00[YRI][hapmap]
rs13095737	0.88[EUR][1000 genomes]
rs13096187	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs13098494	1.00[YRI][hapmap]
rs13098798	0.81[EUR][1000 genomes]
rs13100499	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs13100605	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17345745	1.00[YRI][hapmap]
rs34134134	0.89[EUR][1000 genomes]
rs34171096	0.88[EUR][1000 genomes]
rs34225647	0.83[EUR][1000 genomes]
rs34322396	0.88[EUR][1000 genomes]
rs34443476	0.97[EUR][1000 genomes]
rs34474308	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs34474714	0.86[EUR][1000 genomes]
rs34504120	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34513914	0.84[AMR][1000 genomes]
rs34584255	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34619482	0.92[EUR][1000 genomes]
rs34646795	0.87[AFR][1000 genomes]
rs34732257	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34743949	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34758087	0.89[EUR][1000 genomes]
rs34804976	0.88[EUR][1000 genomes]
rs34827773	0.86[EUR][1000 genomes]
rs34894979	0.88[EUR][1000 genomes]
rs34916096	0.89[EUR][1000 genomes]
rs34916962	0.88[EUR][1000 genomes]
rs34928966	0.89[EUR][1000 genomes]
rs35021696	0.88[EUR][1000 genomes]
rs35028631	0.89[EUR][1000 genomes]
rs35055753	0.89[EUR][1000 genomes]
rs35096750	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35105861	0.88[EUR][1000 genomes]
rs35121170	0.88[EUR][1000 genomes]
rs35156003	0.89[EUR][1000 genomes]
rs35177750	0.88[EUR][1000 genomes]
rs35179250	0.89[EUR][1000 genomes]
rs35190363	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35209889	0.88[EUR][1000 genomes]
rs35218978	0.89[EUR][1000 genomes]
rs35230557	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35240920	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35245309	0.89[EUR][1000 genomes]
rs35266274	0.94[EUR][1000 genomes]
rs35273607	0.89[EUR][1000 genomes]
rs35314441	0.89[EUR][1000 genomes]
rs35346188	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35347265	0.89[EUR][1000 genomes]
rs35383024	0.88[EUR][1000 genomes]
rs35402533	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35408638	0.89[EUR][1000 genomes]
rs35497505	0.89[EUR][1000 genomes]
rs35587590	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35649850	0.86[EUR][1000 genomes]
rs35657558	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35776486	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35778452	0.88[EUR][1000 genomes]
rs35869522	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35892300	0.84[AMR][1000 genomes]
rs35902312	0.92[EUR][1000 genomes]
rs35907941	0.86[EUR][1000 genomes]
rs35928592	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35975795	0.89[EUR][1000 genomes]
rs36060079	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs36123979	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs36124326	0.89[EUR][1000 genomes]
rs36183485	0.81[EUR][1000 genomes]
rs58522464	0.88[EUR][1000 genomes]
rs60074421	0.88[EUR][1000 genomes]
rs71317817	0.84[AMR][1000 genomes]
rs71317820	0.81[EUR][1000 genomes]
rs71317821	0.81[EUR][1000 genomes]
rs71317822	0.81[EUR][1000 genomes]
rs71317823	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71317824	0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs71317827	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71317829	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71317834	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs71322171	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs71322172	0.89[EUR][1000 genomes]
rs71322173	0.86[EUR][1000 genomes]
rs71322174	0.89[EUR][1000 genomes]
rs71322183	0.89[EUR][1000 genomes]
rs71322184	0.89[EUR][1000 genomes]
rs71322185	0.88[EUR][1000 genomes]
rs71322187	0.88[EUR][1000 genomes]
rs71322189	0.88[EUR][1000 genomes]
rs71322190	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:23355200-23365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr3:23355800-23366000	Weak transcription	Ovary	ovary
4	chr3:23356800-23365400	Weak transcription	Brain Anterior Caudate	brain
5	chr3:23356800-23367600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:23357000-23378800	Weak transcription	Brain Angular Gyrus	brain
7	chr3:23357600-23366600	Weak transcription	Brain Substantia Nigra	brain
8	chr3:23357800-23366000	Weak transcription	HSMM	muscle
9	chr3:23358400-23366400	Weak transcription	HSMMtube	muscle
10	chr3:23359200-23366000	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr3:23361600-23365200	Weak transcription	Primary B cells from peripheral blood	blood
12	chr3:23361600-23365800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr3:23361600-23366400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:23362800-23366000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:23363000-23366400	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:23363200-23365200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr3:23363200-23371000	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:23363400-23365200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr3:23363600-23364000	Enhancers	Muscle Satellite Cultured Cells	--
20	chr3:23363800-23371000	Weak transcription	Brain Hippocampus Middle	brain

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