Variant report

Variant	rs55899956
Chromosome Location	chr15:74221074-74221075
allele	A/C
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	SIN3AK20	chr15:74219548-74221127	MCF-7	breast:	n/a	n/a
2	MXI1	chr15:74217976-74222304	IMR90	lung:	n/a	n/a
3	POLR2A	chr15:74217872-74240199	U87	brain:	n/a	n/a
4	CHD1	chr15:74217903-74221545	IMR90	lung:	n/a	n/a
5	POLR2A	chr15:74215819-74242527	U87	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:74163735..74170089-chr15:74218002..74222715,6	MCF-7	breast:
2	chr15:74190385..74192621-chr15:74220750..74222967,2	MCF-7	breast:
3	chr15:74220838..74222691-chr15:74242303..74245094,2	MCF-7	breast:

Variant related genes	Relation type
LOXL1-AS1	TF binding region
ENSG00000167139	Chromatin interaction
ENSG00000260624	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs1001507	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11855863	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6495086	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74026313	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043335	chr15:74078689-74241186	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1603	chr15:74191222-74235733	Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	esv2758387	chr15:74215114-74464916	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	esv2760040	chr15:74215114-74464916	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking 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	32 gene(s)	inside rSNPs	diseases
5	nsv428308	chr15:74215114-74464916	Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
6	esv3324978	chr15:74218524-74221272	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74218200-74221200	Active TSS	Aorta	Aorta
2	chr15:74218400-74221200	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr15:74218400-74221200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
4	chr15:74218600-74221200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr15:74218600-74221200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
6	chr15:74218600-74221200	Active TSS	HSMM	muscle
7	chr15:74218600-74221200	Active TSS	NH-A	brain
8	chr15:74218600-74221200	Active TSS	NHDF-Ad	bronchial
9	chr15:74218600-74221400	Active TSS	HSMMtube	muscle
10	chr15:74218800-74221800	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr15:74219200-74221200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr15:74220200-74221800	Enhancers	Spleen	Spleen
13	chr15:74220400-74221800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:74220400-74222600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:74220400-74222800	Enhancers	Fetal Heart	heart
16	chr15:74220400-74223400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
17	chr15:74220400-74223400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:74220600-74221400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr15:74220600-74221400	Bivalent Enhancer	Thymus	Thymus
20	chr15:74220600-74221600	Enhancers	Primary T killer memory cells from peripheral blood	blood
21	chr15:74220600-74221600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr15:74220600-74221800	Bivalent Enhancer	Fetal Muscle Leg	muscle
23	chr15:74220600-74222000	Enhancers	Left Ventricle	heart
24	chr15:74220600-74222200	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr15:74220600-74222600	Weak transcription	Ovary	ovary
26	chr15:74220600-74223400	Enhancers	Placenta	Placenta
27	chr15:74220800-74221200	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr15:74220800-74221200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr15:74220800-74221200	Enhancers	Fetal Lung	lung
30	chr15:74220800-74221200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
31	chr15:74220800-74221200	Active TSS	Stomach Smooth Muscle	stomach
32	chr15:74220800-74221200	Active TSS	NHLF	lung
33	chr15:74220800-74221400	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr15:74220800-74221400	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr15:74220800-74221400	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
36	chr15:74220800-74221600	Enhancers	Primary T helper cells fromperipheralblood	blood
37	chr15:74220800-74221600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr15:74220800-74221600	Bivalent Enhancer	Brain Anterior Caudate	brain
39	chr15:74220800-74221600	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr15:74220800-74221600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
41	chr15:74220800-74221600	Enhancers	Gastric	stomach
42	chr15:74220800-74221800	Enhancers	H1 Cell Line	embryonic stem cell
43	chr15:74220800-74221800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr15:74220800-74221800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr15:74220800-74221800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
46	chr15:74220800-74221800	Enhancers	Primary T helper cells PMA-I stimulated	--
47	chr15:74220800-74221800	Enhancers	Duodenum Mucosa	Duodenum
48	chr15:74220800-74221800	Bivalent Enhancer	Fetal Stomach	stomach
49	chr15:74220800-74222000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
50	chr15:74220800-74222000	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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