Variant report

Variant	rs41277676
Chromosome Location	chr15:40580654-40580655
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:40579168..40581364-chr15:40581979..40583976,2	MCF-7	breast:
2	chr15:40577767..40580856-chr15:40615734..40618359,3	K562	blood:
3	chr15:40580563..40582571-chr15:40659855..40662035,2	K562	blood:
4	chr15:40578573..40580904-chr15:40592054..40595961,3	K562	blood:

Variant related genes	Relation type
ENSG00000259330	Chromatin interaction
ENSG00000259368	Chromatin interaction
ENSG00000137841	Chromatin interaction
ENSG00000259307	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1869902	0.95[EUR][1000 genomes]
rs2305647	0.88[EUR][1000 genomes]
rs2412508	0.88[EUR][1000 genomes]
rs55713690	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72731484	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72731485	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72731486	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72731496	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]

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	nsv530816	chr15:40003136-40586792	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv904095	chr15:40525430-40591570	Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv471240	chr15:40528155-40595627	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
5	nsv904096	chr15:40550149-40604777	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv510660	chr15:40552906-40721883	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
7	nsv904097	chr15:40555065-40595627	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv517541	chr15:40557268-40595627	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	esv1850798	chr15:40560607-40622191	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
10	nsv904098	chr15:40564576-40586537	Bivalent Enhancer Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
11	nsv457118	chr15:40565705-40606484	Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv569227	chr15:40565705-40606484	Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40572000-40592800	Weak transcription	Dnd41	blood
2	chr15:40575200-40581600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr15:40575600-40582800	Weak transcription	Right Atrium	heart
4	chr15:40575800-40581200	Weak transcription	Pancreas	Pancrea
5	chr15:40575800-40581400	Weak transcription	Liver	Liver
6	chr15:40575800-40584400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr15:40575800-40592600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr15:40576000-40581400	Weak transcription	Gastric	stomach
9	chr15:40576000-40581600	Weak transcription	Primary hematopoietic stem cells	blood
10	chr15:40576000-40590800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr15:40576200-40581400	Weak transcription	Primary B cells from cord blood	blood
12	chr15:40576200-40592600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr15:40577200-40580800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
14	chr15:40577400-40582000	Weak transcription	Colonic Mucosa	Colon
15	chr15:40577400-40593200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:40577600-40582800	Weak transcription	Brain Hippocampus Middle	brain
17	chr15:40577800-40593000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr15:40578000-40596000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr15:40578200-40582600	Weak transcription	Colon Smooth Muscle	Colon
20	chr15:40578200-40583200	Weak transcription	HUVEC	blood vessel
21	chr15:40578200-40585400	Strong transcription	Primary neutrophils fromperipheralblood	blood
22	chr15:40578400-40587600	Enhancers	Fetal Heart	heart
23	chr15:40578600-40587200	Strong transcription	Spleen	Spleen
24	chr15:40578800-40583200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:40578800-40585600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
26	chr15:40578800-40592600	Strong transcription	Primary T cells from cord blood	blood
27	chr15:40579000-40583200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr15:40579000-40583200	Weak transcription	Left Ventricle	heart
29	chr15:40579000-40585400	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr15:40579000-40591600	Strong transcription	Thymus	Thymus
31	chr15:40579000-40592800	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr15:40579000-40592800	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr15:40579000-40595200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:40579000-40595600	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr15:40579200-40581200	Weak transcription	Fetal Intestine Small	intestine
36	chr15:40579200-40582600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr15:40579200-40582800	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr15:40579200-40597000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr15:40579400-40581400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr15:40579400-40582400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr15:40579400-40585400	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr15:40579600-40581800	Weak transcription	Fetal Brain Male	brain
43	chr15:40579600-40583200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
44	chr15:40579800-40580800	Enhancers	A549	lung
45	chr15:40579800-40582600	Weak transcription	Fetal Lung	lung
46	chr15:40579800-40583000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr15:40579800-40592800	Strong transcription	Primary B cells from peripheral blood	blood
48	chr15:40580000-40580800	Enhancers	HSMMtube	muscle
49	chr15:40580000-40581400	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr15:40580200-40581200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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