Variant report

Variant	rs28399313
Chromosome Location	chr5:15014979-15014980
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:15014377..15017867-chr5:15019671..15021896,3	MCF-7	breast:
2	chr5:14663710..14667318-chr5:15013208..15015623,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000261360	Chromatin interaction
ENSG00000154124	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10038423	0.84[AFR][1000 genomes]
rs10054354	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10065137	1.00[AMR][1000 genomes]
rs10065530	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10072516	0.84[AFR][1000 genomes]
rs13357387	0.84[AFR][1000 genomes]
rs13436894	1.00[AMR][1000 genomes]
rs6876822	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv530221	chr5:14859687-15364470	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv432717	chr5:14887400-15126500	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv1017579	chr5:14888997-15194335	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
5	nsv461982	chr5:14943456-15044842	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv597262	chr5:14943456-15044842	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv470991	chr5:14949696-15022112	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv524142	chr5:14986700-15018537	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:15009400-15015200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr5:15009400-15020800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr5:15009800-15015000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr5:15009800-15021000	Weak transcription	Aorta	Aorta
5	chr5:15010000-15015000	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr5:15010400-15015000	Weak transcription	HMEC	breast
7	chr5:15013600-15015200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:15013600-15016400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr5:15013600-15016600	Enhancers	Osteobl	bone
10	chr5:15013800-15015000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr5:15013800-15015200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr5:15013800-15015200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr5:15013800-15015600	Enhancers	Muscle Satellite Cultured Cells	--
14	chr5:15013800-15015600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr5:15013800-15015600	Enhancers	Liver	Liver
16	chr5:15013800-15015600	Enhancers	NH-A	brain
17	chr5:15013800-15015800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr5:15013800-15016200	Enhancers	Fetal Heart	heart
19	chr5:15014000-15015200	Weak transcription	Stomach Mucosa	stomach
20	chr5:15014200-15016400	Enhancers	HSMMtube	muscle
21	chr5:15014600-15015200	Enhancers	NHDF-Ad	bronchial
22	chr5:15014800-15015000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr5:15014800-15015000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr5:15014800-15015200	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr5:15014800-15015200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr5:15014800-15015200	Flanking Active TSS	HepG2	liver
27	chr5:15014800-15015200	Enhancers	NHEK	skin
28	chr5:15014800-15015400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr5:15014800-15015400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr5:15014800-15015400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr5:15014800-15015600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr5:15014800-15015600	Flanking Active TSS	A549	lung
33	chr5:15014800-15015600	Enhancers	HSMM	muscle

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