Variant report

Variant	rs59299420
Chromosome Location	chr15:100024480-100024481
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	chr15:100024061..100027015-chr15:100105805..100107959,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000068305	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1561867	1.00[AMR][1000 genomes]
rs28401581	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28538075	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28625704	1.00[AMR][1000 genomes]
rs28627884	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28703866	1.00[AMR][1000 genomes]
rs28738845	1.00[AMR][1000 genomes]
rs56666565	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58562373	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58649201	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60632743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73473392	1.00[AMR][1000 genomes]
rs73476566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476567	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476570	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476572	1.00[AMR][1000 genomes]
rs73476579	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476583	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476586	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73476597	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915926	chr15:99519820-100138705	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv817289	chr15:99621061-100138705	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv431411	chr15:99621061-100143999	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
6	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv1051560	chr15:99837102-100124483	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
8	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
9	nsv1050527	chr15:99983054-100035436	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv904558	chr15:100019382-100171684	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100014800-100026800	Weak transcription	Aorta	Aorta
2	chr15:100018000-100026000	Weak transcription	A549	lung
3	chr15:100018200-100026000	Weak transcription	Stomach Mucosa	stomach
4	chr15:100018400-100024600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:100018400-100024600	Weak transcription	Lung	lung
6	chr15:100018400-100025800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr15:100018400-100026800	Weak transcription	Gastric	stomach
8	chr15:100018600-100024600	Weak transcription	Stomach Smooth Muscle	stomach
9	chr15:100018600-100024600	Weak transcription	Spleen	Spleen
10	chr15:100018600-100025600	Weak transcription	Right Ventricle	heart
11	chr15:100018800-100025400	Weak transcription	Left Ventricle	heart
12	chr15:100019000-100025400	Weak transcription	Dnd41	blood
13	chr15:100019400-100025200	Weak transcription	Fetal Thymus	thymus
14	chr15:100019600-100025400	Weak transcription	Primary hematopoietic stem cells	blood
15	chr15:100020200-100025400	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr15:100020400-100025400	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr15:100021800-100025200	Weak transcription	Thymus	Thymus
18	chr15:100022000-100025600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr15:100022200-100025400	Weak transcription	Fetal Lung	lung
20	chr15:100022200-100026200	Weak transcription	HSMMtube	muscle
21	chr15:100022400-100025400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr15:100022600-100024600	Weak transcription	Primary T cells from cord blood	blood
23	chr15:100024400-100024600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr15:100024400-100024600	Enhancers	Fetal Heart	heart

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