Variant report

Variant	rs12899928
Chromosome Location	chr15:58819551-58819552
allele	A/C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:58818144..58821107-chr15:58827941..58830725,2	K562	blood:
2	chr15:58815957..58817851-chr15:58819397..58821378,2	MCF-7	breast:
3	chr15:58819426..58821702-chr15:58824237..58826443,2	K562	blood:
4	chr15:58819551..58822537-chr15:58827877..58830479,4	MCF-7	breast:
5	chr15:58816638..58820223-chr15:58821126..58823355,3	K562	blood:
6	chr15:58814659..58816490-chr15:58819397..58821413,2	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs4238330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4775070	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4775071	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4775072	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4775073	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9652472	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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	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
4	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
5	nsv1043041	chr15:58744505-58876327	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv569601	chr15:58800766-58866156	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58807800-58820200	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr15:58814600-58819600	Weak transcription	Fetal Kidney	kidney
3	chr15:58815000-58819600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr15:58815200-58820000	Weak transcription	Colon Smooth Muscle	Colon
5	chr15:58815400-58819600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr15:58815400-58820000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr15:58815400-58820800	Weak transcription	Spleen	Spleen
8	chr15:58815600-58820800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr15:58815600-58821000	Weak transcription	NHEK	skin
10	chr15:58815800-58820000	Weak transcription	Psoas Muscle	Psoas
11	chr15:58816000-58820200	Enhancers	A549	lung
12	chr15:58816200-58820000	Enhancers	Liver	Liver
13	chr15:58816800-58819600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr15:58817400-58820000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
15	chr15:58817600-58820000	Enhancers	HepG2	liver
16	chr15:58817600-58821600	Enhancers	Right Ventricle	heart
17	chr15:58817600-58822000	Enhancers	Pancreas	Pancrea
18	chr15:58818000-58821400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:58818000-58821400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr15:58818000-58825200	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr15:58818200-58821200	Enhancers	Left Ventricle	heart
22	chr15:58818200-58821600	Enhancers	Right Atrium	heart
23	chr15:58818400-58821600	Enhancers	Adipose Nuclei	Adipose
24	chr15:58818600-58819600	Weak transcription	Brain Substantia Nigra	brain
25	chr15:58818600-58821200	Enhancers	Gastric	stomach
26	chr15:58818600-58822600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr15:58818800-58819800	Weak transcription	NHDF-Ad	bronchial
28	chr15:58818800-58820000	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr15:58818800-58821000	Weak transcription	Aorta	Aorta
30	chr15:58819000-58819800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
31	chr15:58819000-58820800	Enhancers	Fetal Intestine Large	intestine
32	chr15:58819000-58821000	Enhancers	Placenta Amnion	Placenta Amnion
33	chr15:58819000-58821000	Enhancers	Rectal Mucosa Donor 29	rectum
34	chr15:58819000-58821600	Enhancers	Stomach Mucosa	stomach
35	chr15:58819200-58819600	Weak transcription	Ovary	ovary
36	chr15:58819200-58819800	Enhancers	Esophagus	oesophagus
37	chr15:58819200-58820400	Enhancers	Fetal Intestine Small	intestine
38	chr15:58819200-58821400	Enhancers	Duodenum Mucosa	Duodenum
39	chr15:58819200-58821400	Enhancers	Placenta	Placenta
40	chr15:58819200-58821400	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr15:58819400-58819600	Enhancers	Primary B cells from cord blood	blood
42	chr15:58819400-58819600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
43	chr15:58819400-58821000	Enhancers	Lung	lung
44	chr15:58819400-58821200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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