Variant report

Variant	rs1724610
Chromosome Location	chr15:52860272-52860273
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52859559..52861665-chr2:55842687..55845255,2	MCF-7	breast:
2	chr15:50646435..50649191-chr15:52859384..52862079,2	MCF-7	breast:
3	chr15:52820217..52824623-chr15:52859000..52863588,7	MCF-7	breast:
4	chr15:52121756..52123415-chr15:52859545..52862503,2	MCF-7	breast:
5	chr15:52858243..52860799-chr15:52942874..52945480,2	K562	blood:
6	chr15:52585776..52589284-chr15:52859101..52864638,8	MCF-7	breast:
7	chr15:52642497..52646908-chr15:52859838..52862165,5	MCF-7	breast:
8	chr15:52859855..52863944-chr15:52968349..52971887,6	MCF-7	breast:
9	chr15:52856954..52860622-chr15:52999914..53003074,3	MCF-7	breast:
10	chr15:52859630..52861792-chr2:21021008..21023718,2	MCF-7	breast:
11	chr15:52821243..52824156-chr15:52859754..52862350,2	MCF-7	breast:
12	chr15:52585351..52588570-chr15:52858851..52862304,3	MCF-7	breast:
13	chr15:52855349..52864927-chr15:52966670..52972620,15	MCF-7	breast:
14	chr15:52471606..52474393-chr15:52859715..52862487,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000104064	Chromatin interaction
ENSG00000244879	Chromatin interaction
ENSG00000069966	Chromatin interaction
ENSG00000128833	Chromatin interaction
ENSG00000138594	Chromatin interaction
ENSG00000047346	Chromatin interaction
ENSG00000197535	Chromatin interaction
ENSG00000118961	Chromatin interaction
ENSG00000272606	Chromatin interaction
ENSG00000138041	Chromatin interaction
ENSG00000259577	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs12439014	1.00[CHB][hapmap]
rs1724573	1.00[MEX][hapmap]

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	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer 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 target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	esv1832020	chr15:52702400-52901914	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv1047775	chr15:52822050-52912228	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS 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
5	nsv833006	chr15:52825954-53040462	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52858600-52861800	Active TSS	GM12878-XiMat	blood
2	chr15:52858800-52860400	Enhancers	Spleen	Spleen
3	chr15:52858800-52861000	Active TSS	Right Atrium	heart
4	chr15:52858800-52861400	Active TSS	Breast Myoepithelial Primary Cells	Breast
5	chr15:52858800-52861600	Active TSS	Psoas Muscle	Psoas
6	chr15:52858800-52861800	Active TSS	HMEC	breast
7	chr15:52859000-52860400	Flanking Active TSS	Liver	Liver
8	chr15:52859000-52860400	Flanking Active TSS	Brain Anterior Caudate	brain
9	chr15:52859000-52860600	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
10	chr15:52859000-52860800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr15:52859000-52860800	Flanking Active TSS	Adipose Nuclei	Adipose
12	chr15:52859000-52861000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr15:52859000-52861200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr15:52859000-52861400	Active TSS	H1 Cell Line	embryonic stem cell
15	chr15:52859000-52861400	Active TSS	HUES48 Cell Line	embryonic stem cell
16	chr15:52859000-52861400	Active TSS	HUES6 Cell Line	embryonic stem cell
17	chr15:52859000-52861400	Active TSS	iPS-18 Cell Line	embryonic stem cell
18	chr15:52859000-52861400	Active TSS	Pancreatic Islets	Pancreatic Islet
19	chr15:52859000-52861600	Active TSS	NHLF	lung
20	chr15:52859000-52862000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr15:52859200-52860400	Flanking Active TSS	Primary T cells from cord blood	blood
22	chr15:52859200-52860400	Flanking Active TSS	Brain Cingulate Gyrus	brain
23	chr15:52859200-52860400	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
24	chr15:52859200-52860400	Flanking Active TSS	Fetal Brain Female	brain
25	chr15:52859200-52860600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
26	chr15:52859200-52860600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
27	chr15:52859200-52860800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr15:52859200-52861200	Flanking Active TSS	Primary hematopoietic stem cells	blood
29	chr15:52859200-52861400	Active TSS	Ovary	ovary
30	chr15:52859200-52861400	Active TSS	K562	blood
31	chr15:52859200-52861600	Active TSS	ES-I3 Cell Line	embryonic stem cell
32	chr15:52859200-52861600	Active TSS	Right Ventricle	heart
33	chr15:52859400-52860400	Flanking Active TSS	Brain Hippocampus Middle	brain
34	chr15:52859400-52860400	Flanking Active TSS	Fetal Lung	lung
35	chr15:52859400-52860800	Flanking Active TSS	Primary B cells from cord blood	blood
36	chr15:52859400-52860800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr15:52859400-52861000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
38	chr15:52859400-52861400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:52859400-52861400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr15:52859400-52861400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr15:52859400-52861400	Active TSS	Fetal Thymus	thymus
42	chr15:52859400-52861600	Active TSS	H9 Cell Line	embryonic stem cell
43	chr15:52859400-52861600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
44	chr15:52859400-52861600	Active TSS	Fetal Adrenal Gland	Adrenal Gland
45	chr15:52859400-52861600	Active TSS	Fetal Intestine Small	intestine
46	chr15:52859400-52861600	Active TSS	Fetal Stomach	stomach
47	chr15:52859400-52861600	Active TSS	A549	lung
48	chr15:52859400-52861800	Active TSS	Fetal Intestine Large	intestine
49	chr15:52859400-52861800	Active TSS	Thymus	Thymus
50	chr15:52859600-52860600	Flanking Active TSS	Rectal Mucosa Donor 31	rectum

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