Variant report

Variant	rs55899409
Chromosome Location	chr15:82478845-82478846
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:82471168..82473775-chr15:82477385..82479321,2	K562	blood:

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs55769553	0.83[AMR][1000 genomes]
rs55770061	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs55787821	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55859328	1.00[AMR][1000 genomes]
rs55889202	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55898630	0.83[AMR][1000 genomes]
rs55933319	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55994913	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56029996	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56050367	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56126531	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56261932	0.83[AMR][1000 genomes]
rs72749523	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749527	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749528	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749529	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749530	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749531	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749532	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749534	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749535	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749537	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749538	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749539	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749545	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749547	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749548	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749551	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749552	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749565	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749566	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749570	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749573	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749577	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749581	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749582	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749585	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749587	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749592	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749593	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749595	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749596	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749598	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749600	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72749602	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72751603	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72751606	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72751611	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72751612	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72751613	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72751663	0.83[AMR][1000 genomes]
rs72751664	0.83[AMR][1000 genomes]
rs72751669	0.83[AMR][1000 genomes]
rs72751670	0.83[AMR][1000 genomes]
rs72751671	0.83[AMR][1000 genomes]
rs72751674	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457212	chr15:82454283-82573255	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv570243	chr15:82454283-82573255	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv457213	chr15:82456227-82573255	Enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv570244	chr15:82456227-82573255	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv570245	chr15:82456227-82591082	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1041040	chr15:82465124-82606410	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	esv1801737	chr15:82468455-82589044	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:82432600-82552800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr15:82444600-82495800	Weak transcription	Fetal Intestine Small	intestine
3	chr15:82456000-82510000	Weak transcription	Thymus	Thymus
4	chr15:82456400-82480600	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr15:82456400-82487000	Weak transcription	Primary B cells from peripheral blood	blood
6	chr15:82456400-82502200	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr15:82456400-82502400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr15:82456400-82502600	Weak transcription	Duodenum Mucosa	Duodenum
9	chr15:82456400-82502800	Weak transcription	Gastric	stomach
10	chr15:82456400-82505400	Weak transcription	Dnd41	blood
11	chr15:82456400-82505600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr15:82456400-82505600	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr15:82456600-82497400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr15:82456800-82509800	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr15:82458200-82504800	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr15:82458600-82479200	Weak transcription	Primary hematopoietic stem cells	blood
17	chr15:82458800-82502800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:82462000-82505800	Weak transcription	Primary B cells from cord blood	blood
19	chr15:82464000-82494800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr15:82465000-82510000	Weak transcription	Placenta	Placenta
21	chr15:82471000-82481200	Weak transcription	Aorta	Aorta
22	chr15:82471000-82502200	Weak transcription	NHEK	skin
23	chr15:82471000-82502800	Weak transcription	Fetal Stomach	stomach
24	chr15:82471000-82518600	Weak transcription	Right Ventricle	heart
25	chr15:82471200-82485000	Weak transcription	NHDF-Ad	bronchial
26	chr15:82472200-82480800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr15:82474800-82479000	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr15:82474800-82502600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
29	chr15:82474800-82502800	Weak transcription	Fetal Intestine Large	intestine
30	chr15:82475400-82502600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr15:82475800-82490200	Weak transcription	Rectal Smooth Muscle	rectum
32	chr15:82476000-82481200	Weak transcription	HSMM	muscle
33	chr15:82476000-82481800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr15:82476000-82519200	Weak transcription	Pancreas	Pancrea
35	chr15:82476400-82479000	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr15:82476400-82502800	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr15:82476600-82502400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr15:82476800-82479000	Weak transcription	Right Atrium	heart
39	chr15:82476800-82485000	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr15:82477000-82482000	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr15:82477000-82484400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr15:82477000-82485200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr15:82477000-82486200	Weak transcription	Hela-S3	cervix
44	chr15:82477000-82490400	Weak transcription	Primary T cells from cord blood	blood
45	chr15:82477000-82502600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr15:82477000-82510000	Weak transcription	HMEC	breast
47	chr15:82477000-82519200	Weak transcription	HSMMtube	muscle
48	chr15:82477200-82482600	Weak transcription	A549	lung
49	chr15:82477400-82502600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
50	chr15:82477600-82485600	Weak transcription	Psoas Muscle	Psoas

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