Variant report

Variant	rs6493584
Chromosome Location	chr15:53096085-53096086
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:53093578..53096252-chr15:53138309..53141218,2	MCF-7	breast:
2	chr15:53088202..53091601-chr15:53093551..53096557,3	MCF-7	breast:
3	chr15:53078999..53085478-chr15:53088216..53096885,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169856	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10518698	0.83[EUR][1000 genomes]
rs2414183	0.94[EUR][1000 genomes]
rs2440358	0.84[EUR][1000 genomes]
rs2440359	0.84[EUR][1000 genomes]
rs62023508	0.83[EUR][1000 genomes]
rs8025155	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv1046970	chr15:53065114-53142386	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
4	nsv569428	chr15:53069874-53140045	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53095400-53096600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
2	chr15:53095400-53096600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
3	chr15:53095600-53096200	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
4	chr15:53095600-53096400	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
5	chr15:53095600-53096400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:53095600-53096600	Enhancers	Lung	lung
7	chr15:53095600-53096800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
8	chr15:53095600-53096800	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
9	chr15:53095600-53097000	Bivalent Enhancer	Primary B cells from peripheral blood	blood
10	chr15:53095600-53097200	Bivalent Enhancer	Fetal Heart	heart
11	chr15:53095600-53097400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr15:53095600-53097800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
13	chr15:53095600-53098600	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
14	chr15:53095600-53098800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
15	chr15:53095800-53096200	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr15:53095800-53096200	Bivalent Enhancer	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
19	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells	blood
20	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
22	chr15:53095800-53096200	Bivalent Enhancer	Placenta	Placenta
23	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Right Ventricle	heart
24	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
25	chr15:53095800-53096200	Flanking Bivalent TSS/Enh	Dnd41	blood
26	chr15:53095800-53096400	Flanking Bivalent TSS/Enh	Primary T helper 17 cells PMA-I stimulated	--
27	chr15:53095800-53096400	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
28	chr15:53095800-53096400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr15:53095800-53096600	Bivalent Enhancer	Duodenum Smooth Muscle	Duodenum
30	chr15:53095800-53096800	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
31	chr15:53095800-53096800	Bivalent Enhancer	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr15:53095800-53096800	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
33	chr15:53095800-53096800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr15:53095800-53096800	Bivalent Enhancer	Adipose Nuclei	Adipose
35	chr15:53095800-53096800	Bivalent Enhancer	Brain Hippocampus Middle	brain
36	chr15:53095800-53096800	Bivalent Enhancer	Fetal Muscle Leg	muscle
37	chr15:53095800-53096800	Bivalent Enhancer	Ovary	ovary
38	chr15:53095800-53097000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
39	chr15:53095800-53097000	Bivalent Enhancer	Fetal Stomach	stomach
40	chr15:53095800-53097000	Bivalent/Poised TSS	Thymus	Thymus
41	chr15:53095800-53097200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
42	chr15:53095800-53097200	Bivalent Enhancer	Fetal Intestine Large	intestine
43	chr15:53095800-53097200	Bivalent Enhancer	Fetal Thymus	thymus
44	chr15:53095800-53097200	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
45	chr15:53095800-53097400	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
46	chr15:53095800-53097400	Bivalent Enhancer	Left Ventricle	heart
47	chr15:53095800-53097800	Bivalent Enhancer	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr15:53095800-53097800	Active TSS	Pancreas	Pancrea
49	chr15:53095800-53097800	Bivalent/Poised TSS	Psoas Muscle	Psoas
50	chr15:53095800-53098400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell

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