Variant report

Variant	rs58098690
Chromosome Location	chr15:78279536-78279537
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	chr15:78275921..78279838-chr15:78281220..78285014,4	MCF-7	breast:
2	chr15:78258734..78259532-chr15:78279301..78280081,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10519182	0.88[EUR][1000 genomes]
rs16969405	0.88[EUR][1000 genomes]
rs16969407	0.88[EUR][1000 genomes]
rs16969408	0.88[EUR][1000 genomes]
rs16969414	0.88[EUR][1000 genomes]
rs1985487	0.88[EUR][1000 genomes]
rs28441175	0.88[EUR][1000 genomes]
rs28451835	0.88[EUR][1000 genomes]
rs28470811	0.88[EUR][1000 genomes]
rs28491609	0.83[EUR][1000 genomes]
rs28526757	0.88[EUR][1000 genomes]
rs28674965	0.88[EUR][1000 genomes]
rs4991997	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55663439	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55930913	0.88[EUR][1000 genomes]
rs57949748	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58117418	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7167778	0.88[EUR][1000 genomes]
rs74027705	0.88[EUR][1000 genomes]
rs74027706	0.88[EUR][1000 genomes]
rs74027709	0.88[EUR][1000 genomes]
rs74029743	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74029754	0.88[EUR][1000 genomes]
rs7495105	0.91[AFR][1000 genomes]
rs7495639	0.88[EUR][1000 genomes]
rs9920647	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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	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

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78268400-78281800	Weak transcription	Right Atrium	heart
2	chr15:78271800-78282400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:78276000-78285200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr15:78276600-78279600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr15:78276600-78280000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr15:78276600-78280800	Weak transcription	Right Ventricle	heart
7	chr15:78276600-78282800	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr15:78276800-78280000	Weak transcription	Hela-S3	cervix
9	chr15:78276800-78280600	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr15:78277600-78285600	Enhancers	Placenta	Placenta
11	chr15:78277800-78282400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
12	chr15:78278200-78280600	Enhancers	Fetal Lung	lung
13	chr15:78278400-78288800	Enhancers	Fetal Muscle Leg	muscle
14	chr15:78278600-78280200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr15:78278600-78280800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:78278600-78281000	Enhancers	Brain Angular Gyrus	brain
17	chr15:78279200-78279600	Bivalent Enhancer	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:78279200-78279600	Enhancers	HMEC	breast
19	chr15:78279200-78279800	Enhancers	Fetal Brain Female	brain
20	chr15:78279200-78280000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr15:78279200-78280000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr15:78279200-78280200	Enhancers	Cortex derived primary cultured neurospheres	brain
23	chr15:78279200-78280400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr15:78279200-78280800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr15:78279200-78281000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr15:78279200-78281200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr15:78279200-78281200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
28	chr15:78279400-78279600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:78279400-78279600	Enhancers	Brain Germinal Matrix	brain
30	chr15:78279400-78279600	Enhancers	Duodenum Mucosa	Duodenum
31	chr15:78279400-78279800	Enhancers	ES-WA7 Cell Line	embryonic stem cell
32	chr15:78279400-78279800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr15:78279400-78279800	Enhancers	Rectal Smooth Muscle	rectum
34	chr15:78279400-78279800	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr15:78279400-78279800	Enhancers	HSMM	muscle
36	chr15:78279400-78280000	Enhancers	H1 Cell Line	embryonic stem cell
37	chr15:78279400-78280000	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr15:78279400-78280000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr15:78279400-78280000	Enhancers	Duodenum Smooth Muscle	Duodenum
40	chr15:78279400-78280000	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
41	chr15:78279400-78280000	Weak transcription	Spleen	Spleen
42	chr15:78279400-78280000	Enhancers	HSMMtube	muscle
43	chr15:78279400-78280200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr15:78279400-78280200	Enhancers	HUES6 Cell Line	embryonic stem cell
45	chr15:78279400-78280200	Enhancers	Brain Anterior Caudate	brain
46	chr15:78279400-78280200	Enhancers	Brain Cingulate Gyrus	brain
47	chr15:78279400-78280200	Enhancers	Brain Hippocampus Middle	brain
48	chr15:78279400-78280400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
49	chr15:78279400-78280400	Bivalent Enhancer	Fetal Stomach	stomach
50	chr15:78279400-78280800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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