Variant report

Variant	rs55932467
Chromosome Location	chr15:45997124-45997125
allele	C/T
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	POLR2A	chr15:45996380-45997154	H1-hESC	embryonic stem cell:	n/a	n/a
2	SIN3A	chr15:45996123-45997193	H1-hESC	embryonic stem cell:	n/a	chr15:45996441-45996450
3	POLR2A	chr15:45996515-45997189	PANC-1	pancreas:	n/a	n/a
4	POLR2A	chr15:45996546-45997183	PANC-1	pancreas:	n/a	n/a
5	TAF1	chr15:45996496-45997160	H1-hESC	embryonic stem cell:	n/a	n/a
6	POLR2A	chr15:45996620-45997148	U87	brain:	n/a	n/a

Variant related genes	Relation type
ENSG00000259200	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12912226	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35554150	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv904191	chr15:45902779-46381874	Flanking Active TSS Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	nsv523136	chr15:45990780-46158407	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45996000-45997800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr15:45996000-45998000	Active TSS	H9 Cell Line	embryonic stem cell
3	chr15:45996000-45998000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:45996000-45998200	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chr15:45996200-45997200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr15:45996200-45997200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr15:45996200-45997800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr15:45996200-45998200	Active TSS	ES-I3 Cell Line	embryonic stem cell
9	chr15:45996200-45998200	Active TSS	H1 Cell Line	embryonic stem cell
10	chr15:45996200-45998200	Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr15:45996200-45998200	Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr15:45996400-45997200	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
13	chr15:45996400-45997200	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
14	chr15:45996400-45997200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr15:45996400-45997200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:45996400-45997200	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
17	chr15:45996400-45997200	Bivalent/Poised TSS	Fetal Kidney	kidney
18	chr15:45996400-45997200	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
19	chr15:45996400-45997200	Enhancers	Lung	lung
20	chr15:45996400-45997200	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
21	chr15:45996400-45997600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr15:45996400-45997600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
23	chr15:45996400-45997600	Bivalent/Poised TSS	Fetal Brain Female	brain
24	chr15:45996400-45997600	Bivalent/Poised TSS	NH-A	brain
25	chr15:45996400-45997800	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
26	chr15:45996400-45998000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
27	chr15:45996400-45998000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr15:45996400-45998000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr15:45996400-45998000	Active TSS	HUES48 Cell Line	embryonic stem cell
30	chr15:45996400-45998000	Active TSS	Primary T helper naive cells from peripheral blood	blood
31	chr15:45996400-45998000	Active TSS	Brain Anterior Caudate	brain
32	chr15:45996400-45998000	Active TSS	Duodenum Mucosa	Duodenum
33	chr15:45996400-45998000	Active TSS	Rectal Smooth Muscle	rectum
34	chr15:45996400-45998200	Bivalent/Poised TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr15:45996400-45998200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr15:45996400-45998200	Active TSS	HUES64 Cell Line	embryonic stem cell
37	chr15:45996400-45998200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr15:45996400-45998200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr15:45996400-45998200	Active TSS	Brain Angular Gyrus	brain
40	chr15:45996600-45997200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
41	chr15:45996600-45997200	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr15:45996600-45997200	Flanking Active TSS	Liver	Liver
43	chr15:45996600-45997200	Flanking Active TSS	Brain Hippocampus Middle	brain
44	chr15:45996600-45997200	Flanking Active TSS	Colonic Mucosa	Colon
45	chr15:45996600-45997200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
46	chr15:45996600-45997200	Flanking Active TSS	Pancreas	Pancrea
47	chr15:45996600-45997200	Bivalent Enhancer	Stomach Mucosa	stomach
48	chr15:45996600-45997200	Flanking Active TSS	Stomach Smooth Muscle	stomach
49	chr15:45996600-45997200	Flanking Bivalent TSS/Enh	Thymus	Thymus
50	chr15:45996600-45997200	Flanking Active TSS	GM12878-XiMat	blood

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