Variant report

Variant	rs1648354
Chromosome Location	chr15:53025692-53025693
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52969340..52972976-chr15:53024542..53030044,12	MCF-7	breast:
2	chr15:52973784..52977367-chr15:53024530..53026901,4	MCF-7	breast:
3	chr15:52820586..52822979-chr15:53024504..53027126,2	MCF-7	breast:
4	chr15:52965949..52968646-chr15:53025332..53028243,3	MCF-7	breast:
5	chr15:52942373..52946105-chr15:53022429..53026141,4	MCF-7	breast:
6	chr15:53022444..53024405-chr15:53025609..53027744,2	MCF-7	breast:
7	chr15:52968697..52973342-chr15:53018163..53028590,24	MCF-7	breast:
8	chr15:53020023..53021825-chr15:53025584..53028001,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000197535	Chromatin interaction
ENSG00000047346	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1648351	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs2456538	0.84[AMR][1000 genomes]
rs35059152	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3886527	1.00[CEU][hapmap];1.00[CHB][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7169654	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 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	nsv833006	chr15:52825954-53040462	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1049055	chr15:52990467-53030603	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv1035212	chr15:52995637-53030603	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
6	nsv1049144	chr15:52995637-53039179	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv1049619	chr15:52995637-53041887	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv515534	chr15:52998262-53025692	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
9	nsv569425	chr15:53001538-53038488	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv569426	chr15:53014003-53046210	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region	5 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	chr15:53021400-53026000	Weak transcription	Osteobl	bone
2	chr15:53021800-53026800	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr15:53022000-53026000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr15:53022600-53025800	Weak transcription	Lung	lung
5	chr15:53022800-53025800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr15:53022800-53025800	Weak transcription	Stomach Mucosa	stomach
7	chr15:53022800-53029800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr15:53023000-53026000	Weak transcription	HSMM	muscle
9	chr15:53023200-53025800	Weak transcription	Psoas Muscle	Psoas
10	chr15:53023600-53027200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
11	chr15:53024000-53025800	Enhancers	HepG2	liver
12	chr15:53024000-53026800	Enhancers	NHDF-Ad	bronchial
13	chr15:53024000-53027000	Enhancers	Liver	Liver
14	chr15:53024000-53027200	Enhancers	Adipose Nuclei	Adipose
15	chr15:53024000-53030800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr15:53024200-53025800	Weak transcription	HSMMtube	muscle
17	chr15:53024200-53027000	Enhancers	Skeletal Muscle Male	skeletal muscle
18	chr15:53024200-53028400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr15:53024600-53026000	Weak transcription	Pancreas	Pancrea
20	chr15:53024800-53026000	Weak transcription	HUVEC	blood vessel
21	chr15:53025200-53026000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
22	chr15:53025200-53026000	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr15:53025200-53026200	Enhancers	Primary B cells from cord blood	blood
24	chr15:53025200-53026400	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr15:53025200-53026800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr15:53025400-53025800	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr15:53025400-53025800	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr15:53025400-53026000	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr15:53025400-53026000	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr15:53025400-53026000	Enhancers	iPS-20b Cell Line	embryonic stem cell
31	chr15:53025400-53026200	Enhancers	H1 Cell Line	embryonic stem cell
32	chr15:53025400-53026200	Enhancers	H9 Cell Line	embryonic stem cell
33	chr15:53025400-53026200	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr15:53025400-53026200	Enhancers	Ovary	ovary
35	chr15:53025400-53026200	Enhancers	Spleen	Spleen
36	chr15:53025400-53026400	Enhancers	Primary B cells from peripheral blood	blood
37	chr15:53025400-53026400	Enhancers	Placenta	Placenta
38	chr15:53025400-53026600	Enhancers	Muscle Satellite Cultured Cells	--
39	chr15:53025400-53027000	Enhancers	Right Atrium	heart
40	chr15:53025400-53027000	Enhancers	Hela-S3	cervix
41	chr15:53025600-53026200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
42	chr15:53025600-53026600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr15:53025600-53026600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr15:53025600-53027000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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