Variant report

Variant	rs7174459
Chromosome Location	chr15:56207983-56207984
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	chr15:56207960-56208710	U87	brain:	n/a	n/a
2	FOS	chr15:56207451-56208554	MCF10A-Er-Src	breast:	n/a	n/a
3	CTCF	chr15:56207813-56210860	A549	lung:	n/a	chr15:56210210-56210228 chr15:56210216-56210225 chr15:56210212-56210225
4	POLR2A	chr15:56207965-56207993	MCF10A-Er-Src	breast:	n/a	n/a
5	POLR2A	chr15:56207960-56208692	U87	brain:	n/a	n/a
6	NR3C1	chr15:56207938-56208653	A549	lung:	n/a	n/a
7	POLR2A	chr15:56207315-56208497	U87	brain:	n/a	n/a

Variant related genes	Relation type
NEDD4	TF binding region

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12442185	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12902644	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17819300	0.85[JPT][hapmap]
rs4774833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9972348	0.95[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	nsv457157	chr15:55722213-56255774	Flanking Active TSS Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv569539	chr15:55722213-56255774	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS 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 lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv569542	chr15:56185262-56210929	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv528617	chr15:56202069-56207983	Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:56176000-56216200	Weak transcription	Fetal Intestine Small	intestine
2	chr15:56188600-56218400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
3	chr15:56190000-56220000	Weak transcription	Pancreas	Pancrea
4	chr15:56190200-56221200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr15:56190400-56219800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr15:56192600-56209000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr15:56200200-56208600	Weak transcription	Stomach Smooth Muscle	stomach
8	chr15:56200200-56213200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr15:56200400-56209000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr15:56200800-56218000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr15:56201000-56230000	Weak transcription	Fetal Intestine Large	intestine
12	chr15:56201200-56217200	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr15:56203600-56209600	Active TSS	Skeletal Muscle Female	skeletal muscle
14	chr15:56204600-56208400	Active TSS	Muscle Satellite Cultured Cells	--
15	chr15:56204600-56208400	Active TSS	HSMMtube	muscle
16	chr15:56204600-56209800	Active TSS	Skeletal Muscle Male	skeletal muscle
17	chr15:56204800-56208000	Active TSS	NH-A	brain
18	chr15:56204800-56210400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr15:56205000-56208400	Active TSS	NHLF	lung
20	chr15:56205000-56208600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr15:56205400-56208400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr15:56205400-56208400	Active TSS	HSMM	muscle
23	chr15:56206800-56217800	Weak transcription	Duodenum Mucosa	Duodenum
24	chr15:56207000-56208600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr15:56207000-56208800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr15:56207400-56209200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:56207400-56209400	Flanking Active TSS	Hela-S3	cervix
28	chr15:56207400-56209600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr15:56207400-56209600	Active TSS	Psoas Muscle	Psoas
30	chr15:56207400-56210000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:56207400-56210400	Weak transcription	Dnd41	blood
32	chr15:56207600-56208000	Flanking Active TSS	NHDF-Ad	bronchial
33	chr15:56207600-56209000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:56207600-56209200	Active TSS	Right Atrium	heart
35	chr15:56207600-56210000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr15:56207600-56210200	Flanking Active TSS	Osteobl	bone
37	chr15:56207600-56221200	Weak transcription	Right Ventricle	heart
38	chr15:56207800-56208000	Flanking Active TSS	A549	lung
39	chr15:56207800-56208200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr15:56207800-56208800	Strong transcription	Primary hematopoietic stem cells	blood
41	chr15:56207800-56208800	Strong transcription	Liver	Liver
42	chr15:56207800-56208800	Transcr. at gene 5' and 3'	NHEK	skin
43	chr15:56207800-56209000	Strong transcription	Primary T cells from cord blood	blood
44	chr15:56207800-56210600	Enhancers	HMEC	breast

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