Variant report

Variant	rs16954843
Chromosome Location	chr15:30228554-30228555
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	chr15:29960061..29960832-chr15:30227692..30229349,4	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1546748	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1554528	0.85[EUR][1000 genomes]
rs1618252	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1718976	0.85[EUR][1000 genomes]
rs1718978	0.81[EUR][1000 genomes]
rs1718980	0.89[EUR][1000 genomes]
rs1718981	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs1719339	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17603507	0.84[EUR][1000 genomes]
rs73371163	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs8027580	0.81[EUR][1000 genomes]
rs8027720	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv995038	chr15:29744279-30366124	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1038495	chr15:29825859-30351687	Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv542293	chr15:29825859-30351687	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv903754	chr15:30023454-30382120	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv903755	chr15:30036085-30351434	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv482572	chr15:30118905-30304529	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv456739	chr15:30178614-30366247	Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv568716	chr15:30178614-30366247	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	nsv431371	chr15:30193316-31012794	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases
10	nsv521157	chr15:30220424-30229213	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv903756	chr15:30220424-30281105	Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv1054008	chr15:30220707-30351687	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv542294	chr15:30220707-30351687	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:30217400-30229200	Weak transcription	Gastric	stomach
2	chr15:30218200-30236200	Weak transcription	Aorta	Aorta
3	chr15:30225400-30229200	Enhancers	Brain Cingulate Gyrus	brain
4	chr15:30225400-30230000	Enhancers	NHEK	skin
5	chr15:30225400-30231800	Enhancers	HMEC	breast
6	chr15:30225400-30232000	Enhancers	Hela-S3	cervix
7	chr15:30225600-30230400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:30225600-30231000	Weak transcription	Esophagus	oesophagus
9	chr15:30225600-30231800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:30225800-30229200	Enhancers	NHLF	lung
11	chr15:30225800-30232000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:30226200-30235600	Enhancers	Brain Substantia Nigra	brain
13	chr15:30226600-30230000	Enhancers	Brain Anterior Caudate	brain
14	chr15:30227000-30231800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr15:30227200-30228800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:30227200-30228800	Enhancers	Brain Inferior Temporal Lobe	brain
17	chr15:30227200-30229200	Enhancers	A549	lung
18	chr15:30227400-30235400	Enhancers	Brain Hippocampus Middle	brain
19	chr15:30227600-30228800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr15:30227600-30229000	Enhancers	Brain Angular Gyrus	brain
21	chr15:30227600-30229000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
22	chr15:30227600-30230600	Weak transcription	Osteobl	bone
23	chr15:30227800-30229400	Enhancers	Placenta	Placenta
24	chr15:30227800-30230000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr15:30227800-30231000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr15:30227800-30231000	Weak transcription	HSMM	muscle
27	chr15:30228000-30228800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:30228000-30229400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:30228000-30229600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr15:30228000-30229800	Weak transcription	NH-A	brain
31	chr15:30228200-30229600	Weak transcription	HUVEC	blood vessel
32	chr15:30228200-30230600	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr15:30228400-30229200	Enhancers	Liver	Liver
34	chr15:30228400-30229600	Weak transcription	Muscle Satellite Cultured Cells	--

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