Variant report

Variant	rs11858288
Chromosome Location	chr15:59739180-59739181
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	chr15:59729642..59731606-chr15:59738279..59739924,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157470	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11071444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11071446	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11853300	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11853709	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11854967	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11857239	0.82[EUR][1000 genomes]
rs11857940	0.95[ASN][1000 genomes]
rs11858284	0.82[EUR][1000 genomes]
rs11858794	0.95[ASN][1000 genomes]
rs56327354	0.81[AMR][1000 genomes]
rs71119480	0.82[EUR][1000 genomes]
rs7161900	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs900829	0.85[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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv904276	chr15:59648633-59743010	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	n/a
3	nsv904278	chr15:59705005-59784648	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:59730800-59754800	Weak transcription	Aorta	Aorta
2	chr15:59731000-59739800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr15:59731200-59740000	Weak transcription	Stomach Mucosa	stomach
4	chr15:59731400-59752200	Weak transcription	A549	lung
5	chr15:59731600-59753600	Weak transcription	Fetal Brain Female	brain
6	chr15:59731800-59753400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr15:59732000-59742000	Weak transcription	Fetal Heart	heart
8	chr15:59732200-59744600	Weak transcription	Hela-S3	cervix
9	chr15:59734000-59739400	Weak transcription	Spleen	Spleen
10	chr15:59735400-59753800	Weak transcription	Primary B cells from cord blood	blood
11	chr15:59736400-59753400	Weak transcription	Brain Angular Gyrus	brain
12	chr15:59736800-59785000	Weak transcription	Fetal Brain Male	brain
13	chr15:59737200-59740200	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr15:59738000-59740400	Enhancers	Fetal Kidney	kidney
15	chr15:59738400-59740000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:59738600-59740200	Enhancers	GM12878-XiMat	blood
17	chr15:59738800-59739600	Enhancers	Brain Cingulate Gyrus	brain
18	chr15:59738800-59740000	Enhancers	Primary B cells from peripheral blood	blood
19	chr15:59739000-59739200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
20	chr15:59739000-59739600	Weak transcription	Brain Hippocampus Middle	brain
21	chr15:59739000-59740000	Weak transcription	Duodenum Mucosa	Duodenum
22	chr15:59739000-59740600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr15:59739000-59748200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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