Variant report

Variant	rs28681535
Chromosome Location	chr15:74659609-74659610
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:74656941..74659751-chr15:74906408..74907911,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000179335	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12438594	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16968477	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16968478	0.87[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs2073475	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3825944	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3935523	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4077583	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4077584	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4077585	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4555110	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4598865	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs60636222	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167038	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7180275	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7181947	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428641	chr15:74555113-74724630	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	34 gene(s)	inside rSNPs	diseases
2	nsv482615	chr15:74593625-74757962	Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	58 gene(s)	inside rSNPs	diseases
3	nsv904351	chr15:74638965-74697084	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv904352	chr15:74638965-74715205	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 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	chr15:74657600-74660200	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
2	chr15:74658200-74661400	Weak transcription	Fetal Heart	heart
3	chr15:74658400-74660000	Active TSS	Placenta	Placenta
4	chr15:74658600-74659800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:74658600-74665800	Weak transcription	Pancreas	Pancrea
6	chr15:74658600-74666200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr15:74658800-74659800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr15:74658800-74660000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
9	chr15:74658800-74661400	Weak transcription	Osteobl	bone
10	chr15:74658800-74664000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr15:74658800-74665800	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr15:74658800-74666000	Weak transcription	Esophagus	oesophagus
13	chr15:74658800-74666200	Weak transcription	Right Atrium	heart
14	chr15:74659000-74659800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr15:74659000-74659800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr15:74659000-74660200	Flanking Active TSS	Hela-S3	cervix
17	chr15:74659000-74661400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr15:74659200-74661600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr15:74659200-74662200	Enhancers	Ovary	ovary
20	chr15:74659400-74659800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr15:74659400-74660200	Enhancers	HUES6 Cell Line	embryonic stem cell
22	chr15:74659400-74666200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr15:74659600-74659800	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:74659600-74659800	Bivalent Enhancer	HMEC	breast
25	chr15:74659600-74660000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
26	chr15:74659600-74660000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr15:74659600-74660000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr15:74659600-74660000	Enhancers	HepG2	liver
29	chr15:74659600-74660200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr15:74659600-74660400	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr15:74659600-74660400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:74659600-74660400	Enhancers	Spleen	Spleen
33	chr15:74659600-74660400	Bivalent Enhancer	NHEK	skin

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