Variant report

Variant	rs56245453
Chromosome Location	chr15:41258353-41258354
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41195887..41198690-chr15:41257429..41259190,2	K562	blood:
2	chr15:41220857..41223569-chr15:41256208..41258931,3	MCF-7	breast:
3	chr15:41229330..41231343-chr15:41257972..41259697,2	MCF-7	breast:
4	chr15:41220389..41222862-chr15:41256619..41258754,2	K562	blood:

Variant related genes	Relation type
ENSG00000128917	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs16971238	0.89[ASN][1000 genomes]
rs2412576	0.80[EUR][1000 genomes]
rs3887640	0.80[EUR][1000 genomes]
rs56829576	0.83[ASN][1000 genomes]
rs58188951	0.87[ASN][1000 genomes]
rs60623955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61173616	0.95[ASN][1000 genomes]
rs73402541	0.89[ASN][1000 genomes]
rs74014730	0.89[ASN][1000 genomes]
rs74014734	0.89[ASN][1000 genomes]
rs8028548	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8030137	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv904103	chr15:41123172-41275014	Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv904105	chr15:41149824-41275014	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
4	nsv904106	chr15:41221067-41259523	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
5	esv1794127	chr15:41245289-41276158	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41246400-41268200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr15:41246600-41270000	Weak transcription	HUVEC	blood vessel
3	chr15:41246800-41268000	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr15:41246800-41268200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr15:41249000-41258400	Weak transcription	K562	blood
6	chr15:41249400-41266000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr15:41249400-41268000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr15:41249600-41258600	Weak transcription	NHLF	lung
9	chr15:41250000-41258400	Weak transcription	Right Atrium	heart
10	chr15:41250000-41264400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr15:41250600-41258600	Weak transcription	Aorta	Aorta
12	chr15:41252400-41269400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:41252600-41258400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr15:41252800-41258400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr15:41252800-41261000	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr15:41252800-41270800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:41253400-41258400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr15:41253600-41258400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr15:41253600-41268200	Weak transcription	Spleen	Spleen
20	chr15:41253600-41268800	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr15:41253600-41268800	Weak transcription	Right Ventricle	heart
22	chr15:41255800-41260800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:41257200-41259600	Enhancers	Fetal Stomach	stomach
24	chr15:41257400-41258600	Enhancers	Fetal Intestine Small	intestine
25	chr15:41257400-41259000	Enhancers	Fetal Kidney	kidney
26	chr15:41257800-41258800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr15:41257800-41260000	Enhancers	Placenta	Placenta
28	chr15:41258000-41258400	Enhancers	Adipose Nuclei	Adipose
29	chr15:41258000-41258800	Enhancers	Fetal Muscle Trunk	muscle
30	chr15:41258000-41258800	Enhancers	Ovary	ovary
31	chr15:41258000-41259200	Enhancers	Fetal Muscle Leg	muscle
32	chr15:41258000-41259400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr15:41258000-41259400	Enhancers	Skeletal Muscle Female	skeletal muscle
34	chr15:41258200-41258600	Enhancers	ES-I3 Cell Line	embryonic stem cell
35	chr15:41258200-41258600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr15:41258200-41258800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr15:41258200-41258800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr15:41258200-41258800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr15:41258200-41258800	Enhancers	Brain Hippocampus Middle	brain
40	chr15:41258200-41258800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr15:41258200-41258800	Enhancers	Left Ventricle	heart
42	chr15:41258200-41258800	Enhancers	Lung	lung
43	chr15:41258200-41258800	Enhancers	Pancreas	Pancrea
44	chr15:41258200-41258800	Enhancers	Psoas Muscle	Psoas
45	chr15:41258200-41259000	Enhancers	iPS-15b Cell Line	embryonic stem cell
46	chr15:41258200-41259000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr15:41258200-41259000	Enhancers	Liver	Liver
48	chr15:41258200-41259400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr15:41258200-41259400	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr15:41258200-41259400	Enhancers	HSMMtube	muscle

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