Variant report

Variant	rs16940299
Chromosome Location	chr15:58729311-58729312
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	chr15:58623609..58625282-chr15:58727962..58730632,2	MCF-7	breast:
2	chr15:58728810..58730578-chr15:58760180..58761799,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128918	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs2227300	1.00[AMR][1000 genomes]
rs41292504	1.00[AMR][1000 genomes]
rs61664367	1.00[AMR][1000 genomes]
rs7175412	1.00[AMR][1000 genomes]
rs7176030	1.00[AMR][1000 genomes]
rs73412742	1.00[AMR][1000 genomes]
rs74016103	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv904267	chr15:58699010-58769583	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1047048	chr15:58701400-58784800	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	esv3362898	chr15:58705732-58850860	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
9	esv2760372	chr15:58721447-58731153	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	esv2761874	chr15:58724371-58730571	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv524065	chr15:58725839-58730889	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv1043362	chr15:58726337-58756571	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58722600-58731000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr15:58724600-58731000	Weak transcription	Duodenum Mucosa	Duodenum
3	chr15:58724800-58731200	Weak transcription	NHDF-Ad	bronchial
4	chr15:58724800-58732600	Weak transcription	Psoas Muscle	Psoas
5	chr15:58725000-58730000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr15:58725000-58731000	Weak transcription	Fetal Intestine Large	intestine
7	chr15:58725000-58731000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr15:58725200-58729800	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr15:58725200-58732000	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr15:58725800-58731800	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:58726200-58732000	Weak transcription	Fetal Intestine Small	intestine
12	chr15:58726400-58731000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr15:58726400-58731000	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr15:58726400-58731000	Weak transcription	Hela-S3	cervix
15	chr15:58726400-58731200	Weak transcription	Placenta	Placenta
16	chr15:58726400-58737200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:58726600-58731000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr15:58726600-58731600	Weak transcription	Adipose Nuclei	Adipose
19	chr15:58726600-58732200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr15:58726600-58734200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr15:58726800-58730800	Weak transcription	Left Ventricle	heart
22	chr15:58726800-58731200	Weak transcription	HSMMtube	muscle
23	chr15:58726800-58731600	Weak transcription	Stomach Mucosa	stomach
24	chr15:58726800-58732000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:58726800-58732000	Weak transcription	HSMM	muscle
26	chr15:58727000-58731200	Weak transcription	Esophagus	oesophagus
27	chr15:58727000-58731400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:58727200-58729800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr15:58727200-58730000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr15:58727200-58730000	Weak transcription	HepG2	liver
31	chr15:58727200-58730200	Weak transcription	Pancreas	Pancrea
32	chr15:58727200-58730400	Weak transcription	Right Atrium	heart
33	chr15:58727200-58730600	Weak transcription	Right Ventricle	heart
34	chr15:58727200-58730600	Weak transcription	Spleen	Spleen
35	chr15:58727200-58731200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:58727200-58731200	Weak transcription	Brain Hippocampus Middle	brain
37	chr15:58727200-58731600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr15:58727800-58729600	Enhancers	Liver	Liver
39	chr15:58728400-58731200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr15:58728800-58730000	Enhancers	Thymus	Thymus
41	chr15:58728800-58738200	Enhancers	Fetal Thymus	thymus
42	chr15:58729200-58732000	Enhancers	A549	lung
43	chr15:58729200-58733400	Enhancers	Placenta Amnion	Placenta Amnion

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