Variant report

Variant	rs2624258
Chromosome Location	chr15:39110442-39110443
allele	C/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:39109788..39110560-chr15:39464020..39464923,3	K562	blood:
2	chr15:39110391..39112088-chr15:39872847..39875458,2	MCF-7	breast:
3	chr15:39109578..39110474-chr15:39145706..39146406,3	MCF-7	breast:
4	chr15:39109626..39110574-chr15:39283075..39284008,7	MCF-7	breast:
5	chr15:39108039..39110943-chr15:39463087..39465051,2	MCF-7	breast:
6	chr15:39109782..39110594-chr15:39145267..39146966,11	MCF-7	breast:
7	chr15:39109610..39110793-chr15:39283014..39284012,10	MCF-7	breast:
8	chr15:38999758..39000677-chr15:39109720..39110502,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000137801	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10520106	0.88[ASN][1000 genomes]
rs12437456	0.88[ASN][1000 genomes]
rs12594084	0.86[ASN][1000 genomes]
rs16967491	0.88[ASN][1000 genomes]
rs16967496	0.88[ASN][1000 genomes]
rs2912390	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4924304	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv832975	chr15:39011915-39227590	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1054810	chr15:39019900-39578526	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv542359	chr15:39019900-39578526	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv904087	chr15:39065424-39117186	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv510659	chr15:39072035-39148591	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv904088	chr15:39081717-39117186	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv904089	chr15:39104689-39117186	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:39107400-39110600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr15:39109000-39110800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr15:39109400-39110800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr15:39109400-39111000	Enhancers	GM12878-XiMat	blood
5	chr15:39109400-39111000	Enhancers	HSMM	muscle
6	chr15:39109600-39110600	Enhancers	Muscle Satellite Cultured Cells	--
7	chr15:39109600-39110600	Enhancers	A549	lung
8	chr15:39109600-39110600	Enhancers	NH-A	brain
9	chr15:39109600-39110600	Enhancers	Osteobl	bone
10	chr15:39109600-39111200	Enhancers	Fetal Heart	heart
11	chr15:39109600-39111800	Enhancers	Fetal Stomach	stomach
12	chr15:39109800-39110600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr15:39109800-39110600	Enhancers	NHEK	skin
14	chr15:39109800-39110800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr15:39109800-39110800	Enhancers	HUVEC	blood vessel
16	chr15:39109800-39110800	Enhancers	NHDF-Ad	bronchial
17	chr15:39109800-39111200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr15:39109800-39112600	Enhancers	Fetal Lung	lung
19	chr15:39110000-39110600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr15:39110000-39110600	Enhancers	Fetal Muscle Leg	muscle
21	chr15:39110000-39110800	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr15:39110000-39110800	Enhancers	Fetal Muscle Trunk	muscle
23	chr15:39110200-39110600	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr15:39110200-39110600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr15:39110200-39110600	Flanking Active TSS	Brain Hippocampus Middle	brain
26	chr15:39110200-39110600	Active TSS	Brain Inferior Temporal Lobe	brain
27	chr15:39110200-39110600	Enhancers	Rectal Smooth Muscle	rectum
28	chr15:39110200-39110800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr15:39110200-39110800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr15:39110200-39110800	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr15:39110200-39110800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:39110200-39110800	Enhancers	Fetal Brain Female	brain
33	chr15:39110200-39110800	Enhancers	Pancreas	Pancrea
34	chr15:39110400-39110600	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr15:39110400-39110600	Enhancers	Brain Angular Gyrus	brain
36	chr15:39110400-39110600	Flanking Active TSS	Brain Cingulate Gyrus	brain
37	chr15:39110400-39110600	Enhancers	Hela-S3	cervix
38	chr15:39110400-39110800	Active TSS	Brain Anterior Caudate	brain
39	chr15:39110400-39111400	Weak transcription	Fetal Kidney	kidney
40	chr15:39110400-39112000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr15:39110400-39112400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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