Variant report

Variant	rs3890545
Chromosome Location	chr15:78163265-78163266
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	chr15:77925519..77926294-chr15:78162494..78163468,3	MCF-7	breast:
2	chr15:78162688..78164962-chr15:78166571..78168544,2	K562	blood:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs11857840	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
3	nsv833062	chr15:78035206-78220358	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv1833316	chr15:78081307-78328108	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active 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	18 gene(s)	inside rSNPs	diseases
5	nsv904426	chr15:78090630-78264164	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv904427	chr15:78129964-78251431	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv976954	chr15:78153346-78255825	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv1046383	chr15:78153850-78229596	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv904428	chr15:78156238-78230906	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv904429	chr15:78160362-78251431	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78161400-78163400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:78162200-78163400	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr15:78162400-78163600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
4	chr15:78162400-78164800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:78162600-78164400	Bivalent Enhancer	Fetal Stomach	stomach
6	chr15:78162800-78163400	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:78163000-78163400	Enhancers	H1 Cell Line	embryonic stem cell
8	chr15:78163000-78163400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:78163000-78163400	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
10	chr15:78163000-78163400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr15:78163000-78163400	Enhancers	Fetal Intestine Large	intestine
12	chr15:78163000-78163400	Enhancers	A549	lung
13	chr15:78163000-78163400	Flanking Active TSS	Hela-S3	cervix
14	chr15:78163000-78163400	Enhancers	HepG2	liver
15	chr15:78163000-78163400	Enhancers	K562	blood
16	chr15:78163000-78163600	Enhancers	Fetal Brain Female	brain
17	chr15:78163000-78164200	Enhancers	Fetal Intestine Small	intestine
18	chr15:78163000-78164400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
19	chr15:78163000-78164400	Enhancers	Fetal Muscle Leg	muscle
20	chr15:78163200-78163400	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:78163200-78163400	Bivalent Enhancer	Placenta	Placenta
22	chr15:78163200-78163400	Enhancers	Skeletal Muscle Male	skeletal muscle
23	chr15:78163200-78164000	Enhancers	Brain Germinal Matrix	brain
24	chr15:78163200-78164400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:78163200-78166400	Weak transcription	Spleen	Spleen
26	chr15:78163200-78167600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr15:78163200-78177400	Weak transcription	Esophagus	oesophagus

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