Variant report

Variant	rs545871679
Chromosome Location	chr1:46159167-46159168
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:46151653..46154239-chr1:46155788..46159254,3	MCF-7	breast:
2	chr1:46158939..46160922-chr1:46213584..46216155,2	MCF-7	breast:
3	chr1:46156649..46159424-chr1:46274017..46275928,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NASP-1	chr1:46158876-46159517	NONHSAT002965

Variant related genes	Relation type
ENSG00000159592	Chromatin interaction
ENSG00000159596	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529631	chr1:45905936-46335246	Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	207 gene(s)	inside rSNPs	diseases
2	nsv932680	chr1:45935520-46686477	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	232 gene(s)	inside rSNPs	diseases
3	nsv868828	chr1:45953923-46686477	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	232 gene(s)	inside rSNPs	diseases
4	nsv871928	chr1:46024701-46609736	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
5	nsv1011587	chr1:46051672-46244492	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
6	nsv1014128	chr1:46097670-46394540	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	77 gene(s)	inside rSNPs	diseases
7	nsv1010054	chr1:46144479-46320493	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats 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	75 gene(s)	inside rSNPs	diseases
8	nsv1006861	chr1:46144479-46417621	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
9	nsv1003049	chr1:46144479-46476149	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
10	nsv870511	chr1:46148138-46245423	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
11	nsv871233	chr1:46153203-46311275	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
12	nsv945922	chr1:46158774-46160316	Strong transcription Weak transcription	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:46154600-46160200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr1:46154600-46160600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:46154600-46163000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr1:46154600-46169400	Weak transcription	Ovary	ovary
5	chr1:46154600-46177200	Weak transcription	Aorta	Aorta
6	chr1:46154600-46180000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr1:46154600-46188600	Weak transcription	Fetal Heart	heart
8	chr1:46154600-46206600	Weak transcription	Brain Substantia Nigra	brain
9	chr1:46154800-46160800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr1:46154800-46186000	Weak transcription	Psoas Muscle	Psoas
11	chr1:46154800-46192600	Weak transcription	Pancreas	Pancrea
12	chr1:46155000-46161400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr1:46155000-46185200	Weak transcription	Colonic Mucosa	Colon
14	chr1:46155000-46187000	Weak transcription	NHLF	lung
15	chr1:46155000-46215800	Weak transcription	Small Intestine	intestine
16	chr1:46155200-46159400	Weak transcription	NH-A	brain
17	chr1:46155200-46177600	Weak transcription	Fetal Brain Male	brain
18	chr1:46155200-46178800	Weak transcription	Stomach Mucosa	stomach
19	chr1:46155400-46161000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr1:46155400-46163200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr1:46155400-46163600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr1:46155600-46160600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
23	chr1:46155600-46161400	Strong transcription	Brain Germinal Matrix	brain
24	chr1:46155600-46162200	Strong transcription	HUES64 Cell Line	embryonic stem cell
25	chr1:46155600-46163600	Strong transcription	Placenta	Placenta
26	chr1:46155600-46204600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr1:46155800-46159200	Strong transcription	NHEK	skin
28	chr1:46155800-46163600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr1:46155800-46163600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr1:46155800-46163600	Strong transcription	Fetal Muscle Leg	muscle
31	chr1:46155800-46188400	Weak transcription	Hela-S3	cervix
32	chr1:46155800-46215600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
33	chr1:46156000-46159400	Strong transcription	K562	blood
34	chr1:46156000-46161200	Strong transcription	Fetal Muscle Trunk	muscle
35	chr1:46156000-46161200	Strong transcription	GM12878-XiMat	blood
36	chr1:46156000-46162400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
37	chr1:46156000-46163000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr1:46156000-46163000	Strong transcription	Fetal Brain Female	brain
39	chr1:46156000-46163000	Strong transcription	Dnd41	blood
40	chr1:46156000-46163200	Strong transcription	Rectal Mucosa Donor 29	rectum
41	chr1:46156000-46177200	Weak transcription	Lung	lung
42	chr1:46156200-46163000	Strong transcription	Duodenum Mucosa	Duodenum
43	chr1:46156200-46170600	Weak transcription	HepG2	liver
44	chr1:46156400-46160600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:46156400-46160800	Strong transcription	HUVEC	blood vessel
46	chr1:46156400-46162600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr1:46156400-46163000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr1:46156400-46163200	Strong transcription	Primary T cells fromperipheralblood	blood
49	chr1:46156600-46160000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr1:46156600-46160400	Strong transcription	Primary hematopoietic stem cells	blood

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