Variant report

Variant	rs12907378
Chromosome Location	chr15:58654430-58654431
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:58645233..58647204-chr15:58651781..58654730,3	MCF-7	breast:
2	chr15:58649963..58652081-chr15:58653053..58654968,2	K562	blood:

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11071374	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11855320	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12912371	0.97[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1444938	0.84[ASN][1000 genomes]
rs16940126	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs473422	0.82[ASN][1000 genomes]
rs4775033	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4775038	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047246	chr15:58375607-58707158	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv529717	chr15:58519923-58756814	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1042201	chr15:58520746-58780710	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv569598	chr15:58552606-58852463	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv904266	chr15:58580921-58689187	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv1041779	chr15:58634768-58662280	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58642600-58655800	Weak transcription	Right Atrium	heart
2	chr15:58649600-58656000	Enhancers	Placenta	Placenta
3	chr15:58651000-58655000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr15:58651000-58655400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:58651200-58654600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr15:58651200-58654600	Weak transcription	GM12878-XiMat	blood
7	chr15:58651200-58654800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr15:58651200-58655000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr15:58651400-58654800	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr15:58651400-58654800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr15:58651400-58654800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr15:58651400-58654800	Weak transcription	Thymus	Thymus
13	chr15:58651600-58654600	Weak transcription	Primary T cells from cord blood	blood
14	chr15:58651600-58655400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr15:58652200-58655200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:58652200-58656000	Enhancers	Placenta Amnion	Placenta Amnion
17	chr15:58652800-58655400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr15:58652800-58655400	Enhancers	Colon Smooth Muscle	Colon
19	chr15:58652800-58656200	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr15:58652800-58656200	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr15:58653000-58654800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr15:58653200-58654600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:58653200-58655000	Enhancers	HSMM	muscle
24	chr15:58653200-58655000	Enhancers	HSMMtube	muscle
25	chr15:58653200-58655200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:58653200-58655200	Enhancers	Rectal Smooth Muscle	rectum
27	chr15:58653200-58655200	Enhancers	NHEK	skin
28	chr15:58653400-58654800	Weak transcription	Esophagus	oesophagus
29	chr15:58653400-58654800	Weak transcription	K562	blood
30	chr15:58653400-58655400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr15:58653400-58655400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:58653600-58654800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr15:58654000-58655000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr15:58654000-58655000	Weak transcription	Adipose Nuclei	Adipose
35	chr15:58654000-58655200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr15:58654000-58655200	Weak transcription	Fetal Stomach	stomach
37	chr15:58654000-58655600	Weak transcription	Primary hematopoietic stem cells	blood
38	chr15:58654000-58656000	Enhancers	Monocytes-CD14+_RO01746	blood
39	chr15:58654200-58654600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr15:58654200-58654600	Enhancers	NHLF	lung
41	chr15:58654200-58654800	Enhancers	Hela-S3	cervix
42	chr15:58654200-58654800	Enhancers	NHDF-Ad	bronchial
43	chr15:58654200-58655000	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr15:58654200-58661000	Weak transcription	Fetal Kidney	kidney
45	chr15:58654400-58655200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr15:58654400-58656200	Enhancers	Primary T helper naive cells from peripheral blood	blood
47	chr15:58654400-58656200	Enhancers	Primary T helper cells PMA-I stimulated	--
48	chr15:58654400-58656200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
49	chr15:58654400-58656200	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr15:58654400-58656200	Enhancers	Fetal Thymus	thymus

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