Variant report

Variant	rs8025558
Chromosome Location	chr15:41063829-41063830
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr15:41063503-41064549	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:41058708..41062204-chr15:41062731..41065541,5	K562	blood:
2	chr15:41062391..41066610-chr15:41066936..41069911,4	MCF-7	breast:
3	chr15:41024400..41027311-chr15:41063021..41065498,2	K562	blood:
4	chr15:41054628..41058503-chr15:41058814..41065530,15	K562	blood:

Variant related genes	Relation type
DNAJC17	TF binding region
ENSG00000104129	Chromatin interaction
ENSG00000188277	Chromatin interaction
ENSG00000137880	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs16971001	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2016546	0.93[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[YRI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2301176	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2898999	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3784290	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs57096780	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs57272245	0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7174651	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7175221	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7179899	1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs73398513	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73398545	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8029321	1.00[ASN][1000 genomes]
rs8031526	1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.88[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	nsv1053173	chr15:40933163-41094127	Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv542363	chr15:40933163-41094127	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	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
4	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
5	nsv904102	chr15:41046883-41201699	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41057200-41065400	Weak transcription	Brain Angular Gyrus	brain
2	chr15:41057200-41068200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr15:41057400-41070800	Weak transcription	Psoas Muscle	Psoas
4	chr15:41057600-41066600	Weak transcription	Fetal Heart	heart
5	chr15:41057600-41067400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr15:41058000-41069000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
7	chr15:41058200-41066800	Weak transcription	Fetal Kidney	kidney
8	chr15:41058200-41067400	Weak transcription	A549	lung
9	chr15:41058400-41068800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr15:41058600-41065600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:41058600-41072400	Strong transcription	Placenta	Placenta
12	chr15:41059000-41065400	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr15:41059000-41065600	Weak transcription	NHDF-Ad	bronchial
14	chr15:41059200-41072400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr15:41059400-41066800	Weak transcription	K562	blood
16	chr15:41059600-41064000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
17	chr15:41059600-41065400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr15:41059600-41066600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:41059600-41066600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr15:41059600-41069000	Strong transcription	NHLF	lung
21	chr15:41059800-41064800	Weak transcription	Ovary	ovary
22	chr15:41059800-41066200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr15:41059800-41072600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:41060000-41065400	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr15:41060000-41072800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr15:41060400-41064000	Genic enhancers	Fetal Thymus	thymus
27	chr15:41060400-41065400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr15:41060800-41064400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr15:41060800-41065000	Genic enhancers	Liver	Liver
30	chr15:41061000-41064400	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr15:41061200-41064800	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr15:41061200-41065600	Weak transcription	Small Intestine	intestine
33	chr15:41061600-41064000	Enhancers	Fetal Muscle Leg	muscle
34	chr15:41061600-41064800	Weak transcription	Fetal Lung	lung
35	chr15:41061800-41064000	Enhancers	Primary hematopoietic stem cells	blood
36	chr15:41061800-41065200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr15:41062000-41064200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr15:41062200-41064800	Weak transcription	Brain Substantia Nigra	brain
39	chr15:41062200-41069400	Strong transcription	Aorta	Aorta
40	chr15:41062200-41072600	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr15:41062200-41072600	Strong transcription	Fetal Brain Female	brain
42	chr15:41062200-41072600	Strong transcription	Right Ventricle	heart
43	chr15:41062200-41072600	Strong transcription	Stomach Smooth Muscle	stomach
44	chr15:41062200-41072800	Strong transcription	Fetal Stomach	stomach
45	chr15:41062400-41064000	Weak transcription	Brain Cingulate Gyrus	brain
46	chr15:41062400-41066400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr15:41062400-41067000	Weak transcription	Fetal Brain Male	brain
48	chr15:41062400-41068800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr15:41062400-41068800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr15:41062400-41069800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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