Variant report

Variant	rs62022402
Chromosome Location	chr15:54813403-54813404
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	chr15:54812666..54814961-chr15:54822160..54825055,2	MCF-7	breast:

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs16974787	0.83[EUR][1000 genomes]
rs16974800	0.83[EUR][1000 genomes]
rs17237683	0.83[EUR][1000 genomes]
rs17818572	0.83[EUR][1000 genomes]
rs1818706	0.83[EUR][1000 genomes]
rs57273810	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57439022	0.92[AFR][1000 genomes]
rs58025043	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58513964	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58750441	0.90[EUR][1000 genomes]
rs58756936	0.94[AFR][1000 genomes]
rs59729248	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60711672	0.94[AFR][1000 genomes]
rs60912017	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022200	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022201	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022202	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022204	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022205	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022206	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022207	0.83[EUR][1000 genomes]
rs62022209	0.83[EUR][1000 genomes]
rs62022210	0.83[EUR][1000 genomes]
rs62022212	0.83[EUR][1000 genomes]
rs62022213	0.83[EUR][1000 genomes]
rs62022398	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62022400	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022401	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62022404	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022405	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022406	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022409	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62022410	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022411	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62022412	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022413	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022414	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022416	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022417	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022419	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022420	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022423	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022424	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022425	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022427	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62022749	0.83[EUR][1000 genomes]
rs62022751	0.83[EUR][1000 genomes]
rs62022752	0.83[EUR][1000 genomes]
rs62022753	0.83[EUR][1000 genomes]
rs62022758	0.83[EUR][1000 genomes]
rs62022759	0.85[EUR][1000 genomes]
rs62023984	0.83[EUR][1000 genomes]
rs62023985	0.83[EUR][1000 genomes]
rs62023986	0.83[EUR][1000 genomes]
rs62023987	0.83[EUR][1000 genomes]
rs62023988	0.83[EUR][1000 genomes]
rs62023989	0.83[EUR][1000 genomes]
rs62023990	0.83[EUR][1000 genomes]
rs62023992	0.83[EUR][1000 genomes]
rs62023993	0.83[EUR][1000 genomes]
rs7168929	0.81[AMR][1000 genomes]
rs73421550	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73421556	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73421557	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs74016644	0.98[AFR][1000 genomes]
rs74016645	0.94[AFR][1000 genomes]
rs8024541	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030914	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8040295	0.83[EUR][1000 genomes]
rs8040699	0.83[EUR][1000 genomes]
rs8040891	0.83[EUR][1000 genomes]
rs8041462	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	nsv817539	chr15:54132584-55095235	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1038660	chr15:54756184-55039913	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
3	esv275383	chr15:54810814-54814852	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:54807000-54820600	Weak transcription	Fetal Brain Male	brain
2	chr15:54809000-54814000	Weak transcription	Ovary	ovary
3	chr15:54809600-54814400	Enhancers	Fetal Lung	lung
4	chr15:54811000-54869600	Weak transcription	Aorta	Aorta
5	chr15:54811800-54813800	Weak transcription	Fetal Kidney	kidney
6	chr15:54812000-54813600	Enhancers	Primary T cells from cord blood	blood
7	chr15:54812000-54814400	Enhancers	Primary hematopoietic stem cells	blood
8	chr15:54812200-54813600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr15:54812200-54814200	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr15:54812400-54814400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:54812400-54814400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:54812800-54815800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr15:54813000-54814000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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