Variant report

Variant	rs28438810
Chromosome Location	chr15:33156582-33156583
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	STAT3	chr15:33156323-33156676	MCF10A-Er-Src	breast:	n/a	n/a
2	STAT3	chr15:33156317-33156731	MCF10A-Er-Src	breast:	n/a	n/a
3	FOXA2	chr15:33156025-33156594	A549	lung:	n/a	n/a
4	TCF12	chr15:33155593-33156748	A549	lung:	n/a	n/a
5	STAT3	chr15:33156339-33156650	MCF10A-Er-Src	breast:	n/a	n/a
6	STAT3	chr15:33156381-33156669	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
FMN1	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11858697	1.00[AMR][1000 genomes]
rs16961078	1.00[AMR][1000 genomes]
rs16961225	1.00[AMR][1000 genomes]
rs34048616	1.00[AMR][1000 genomes]
rs74014338	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv832962	chr15:33111517-33239736	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv903978	chr15:33144202-33308641	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv903979	chr15:33144202-33550256	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv1041609	chr15:33148035-33355999	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv542339	chr15:33148035-33355999	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv903980	chr15:33149087-33264201	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
10	nsv1052966	chr15:33149753-33541951	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv542340	chr15:33149753-33541951	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33096400-33159000	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr15:33118600-33159000	Weak transcription	Gastric	stomach
3	chr15:33131800-33164800	Weak transcription	Pancreas	Pancrea
4	chr15:33138800-33190600	Weak transcription	Thymus	Thymus
5	chr15:33139600-33190600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr15:33142600-33168200	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr15:33147000-33191400	Weak transcription	Lung	lung
8	chr15:33148000-33158600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr15:33149000-33158800	Weak transcription	Hela-S3	cervix
10	chr15:33149000-33202000	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr15:33149200-33158800	Weak transcription	Stomach Mucosa	stomach
12	chr15:33149400-33159000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr15:33149600-33169600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr15:33153800-33157800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:33153800-33173200	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr15:33154200-33158600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr15:33154400-33156600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:33154400-33156800	Weak transcription	Brain Angular Gyrus	brain
19	chr15:33154400-33156800	Weak transcription	Brain Substantia Nigra	brain
20	chr15:33154400-33158400	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr15:33154400-33158600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr15:33154400-33158600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr15:33154400-33158600	Weak transcription	Colon Smooth Muscle	Colon
24	chr15:33154400-33158800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr15:33154400-33158800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr15:33154400-33159000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
27	chr15:33154400-33159000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr15:33154400-33159200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr15:33154400-33159200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:33154400-33160600	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr15:33154400-33164000	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr15:33154400-33164600	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr15:33154400-33173800	Weak transcription	Placenta	Placenta
34	chr15:33154400-33192800	Weak transcription	Colonic Mucosa	Colon
35	chr15:33154400-33216800	Weak transcription	Fetal Thymus	thymus
36	chr15:33154600-33156600	Enhancers	Muscle Satellite Cultured Cells	--
37	chr15:33154600-33157000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr15:33154600-33157400	Enhancers	Osteobl	bone
39	chr15:33154600-33158200	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr15:33154600-33158200	Weak transcription	Fetal Stomach	stomach
41	chr15:33154600-33158800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr15:33154600-33158800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:33154600-33158800	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr15:33154600-33158800	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr15:33154600-33158800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr15:33154600-33159000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr15:33154600-33159000	Weak transcription	HMEC	breast
48	chr15:33154600-33159000	Weak transcription	NHEK	skin
49	chr15:33154800-33156800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr15:33154800-33157000	Weak transcription	Duodenum Smooth Muscle	Duodenum

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