Variant report

Variant	rs60889301
Chromosome Location	chr15:40397807-40397808
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40321938..40324558-chr15:40397349..40402797,4	MCF-7	breast:
2	chr15:40396612..40398136-chr15:40423980..40425844,2	K562	blood:
3	chr15:40329348..40332922-chr15:40394377..40398986,5	MCF-7	breast:
4	chr15:40395905..40397944-chr15:40452916..40455241,3	MCF-7	breast:
5	chr15:40330945..40332578-chr15:40397344..40399517,2	K562	blood:
6	chr15:40379547..40381782-chr15:40396111..40398110,2	K562	blood:

Variant related genes	Relation type
ENSG00000128829	Chromatin interaction
ENSG00000248508	Chromatin interaction
ENSG00000259409	Chromatin interaction
ENSG00000156970	Chromatin interaction
ENSG00000140319	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11070254	1.00[EUR][1000 genomes]
rs11070255	1.00[EUR][1000 genomes]
rs12102172	1.00[EUR][1000 genomes]
rs12385956	1.00[EUR][1000 genomes]
rs13380113	1.00[EUR][1000 genomes]
rs13380241	1.00[EUR][1000 genomes]
rs1494534	1.00[EUR][1000 genomes]
rs1801528	1.00[EUR][1000 genomes]
rs1869906	1.00[EUR][1000 genomes]
rs28390245	1.00[EUR][1000 genomes]
rs28417868	1.00[EUR][1000 genomes]
rs28485685	1.00[EUR][1000 genomes]
rs28501335	1.00[EUR][1000 genomes]
rs28526743	1.00[EUR][1000 genomes]
rs28561898	1.00[EUR][1000 genomes]
rs28565228	1.00[EUR][1000 genomes]
rs28606396	1.00[EUR][1000 genomes]
rs28637656	1.00[EUR][1000 genomes]
rs28637697	1.00[EUR][1000 genomes]
rs28657938	1.00[EUR][1000 genomes]
rs28668026	1.00[EUR][1000 genomes]
rs28673302	1.00[EUR][1000 genomes]
rs28744626	1.00[EUR][1000 genomes]
rs28750294	1.00[EUR][1000 genomes]
rs28792493	1.00[EUR][1000 genomes]
rs28844897	1.00[EUR][1000 genomes]
rs28869227	1.00[EUR][1000 genomes]
rs35611758	1.00[EUR][1000 genomes]
rs56888636	1.00[EUR][1000 genomes]
rs57029027	1.00[EUR][1000 genomes]
rs58216655	1.00[EUR][1000 genomes]
rs58584688	1.00[EUR][1000 genomes]
rs60743501	1.00[EUR][1000 genomes]
rs7164281	1.00[EUR][1000 genomes]
rs7168394	1.00[EUR][1000 genomes]
rs7168416	1.00[EUR][1000 genomes]
rs7178873	1.00[EUR][1000 genomes]
rs73377835	1.00[EUR][1000 genomes]
rs73389487	1.00[EUR][1000 genomes]
rs73389489	1.00[EUR][1000 genomes]
rs73389492	1.00[EUR][1000 genomes]
rs73389507	1.00[EUR][1000 genomes]
rs73389520	1.00[EUR][1000 genomes]
rs73389531	1.00[EUR][1000 genomes]
rs73389536	1.00[EUR][1000 genomes]
rs73389540	1.00[EUR][1000 genomes]
rs73390146	1.00[EUR][1000 genomes]
rs73390155	1.00[EUR][1000 genomes]
rs73390162	1.00[EUR][1000 genomes]
rs73390167	1.00[EUR][1000 genomes]
rs73390168	1.00[EUR][1000 genomes]
rs73390187	1.00[EUR][1000 genomes]
rs73392641	1.00[EUR][1000 genomes]
rs8026988	1.00[EUR][1000 genomes]
rs8364	1.00[EUR][1000 genomes]
rs9806126	1.00[EUR][1000 genomes]
rs9806144	1.00[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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv428635	chr15:40274500-40436293	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	esv3352587	chr15:40397591-40397934	Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40389200-40400000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
2	chr15:40389800-40400400	Enhancers	Small Intestine	intestine
3	chr15:40390400-40399800	Transcr. at gene 5' and 3'	Thymus	Thymus
4	chr15:40391000-40399800	Enhancers	Liver	Liver
5	chr15:40391200-40398800	Enhancers	Placenta	Placenta
6	chr15:40391400-40400000	Enhancers	Stomach Mucosa	stomach
7	chr15:40392000-40400000	Enhancers	Right Atrium	heart
8	chr15:40392000-40400000	Enhancers	Right Ventricle	heart
9	chr15:40392000-40400400	Enhancers	Pancreas	Pancrea
10	chr15:40392200-40400200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr15:40392400-40398400	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr15:40392600-40398600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr15:40393800-40399200	Enhancers	Ovary	ovary
14	chr15:40393800-40400200	Enhancers	Esophagus	oesophagus
15	chr15:40394000-40400200	Enhancers	Left Ventricle	heart
16	chr15:40394200-40398400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:40394200-40398800	Enhancers	Gastric	stomach
18	chr15:40394200-40400000	Enhancers	Fetal Intestine Large	intestine
19	chr15:40394200-40400000	Enhancers	Fetal Muscle Trunk	muscle
20	chr15:40394400-40399400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr15:40394600-40398000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr15:40394800-40398000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
23	chr15:40394800-40398200	Flanking Active TSS	Stomach Smooth Muscle	stomach
24	chr15:40394800-40398400	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr15:40394800-40400000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
26	chr15:40394800-40400200	Enhancers	Placenta Amnion	Placenta Amnion
27	chr15:40395000-40400200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr15:40395200-40398200	Flanking Active TSS	Rectal Smooth Muscle	rectum
29	chr15:40395200-40399600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
30	chr15:40395200-40400200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr15:40395200-40400200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr15:40395400-40398800	Enhancers	Fetal Brain Male	brain
33	chr15:40395400-40400400	Flanking Active TSS	GM12878-XiMat	blood
34	chr15:40395600-40398200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr15:40395600-40399400	Enhancers	Duodenum Smooth Muscle	Duodenum
36	chr15:40395600-40399800	Enhancers	Fetal Heart	heart
37	chr15:40395800-40398200	Enhancers	HMEC	breast
38	chr15:40395800-40398400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:40395800-40399800	Enhancers	H1 Cell Line	embryonic stem cell
40	chr15:40395800-40400000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr15:40395800-40400200	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr15:40396000-40398000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr15:40396000-40399600	Enhancers	HSMM	muscle
44	chr15:40396200-40398800	Enhancers	HUES6 Cell Line	embryonic stem cell
45	chr15:40396200-40398800	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr15:40396200-40398800	Genic enhancers	Fetal Intestine Small	intestine
47	chr15:40396200-40399000	Enhancers	H9 Cell Line	embryonic stem cell
48	chr15:40396200-40400200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr15:40396200-40400800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
50	chr15:40396400-40400000	Enhancers	A549	lung

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