Variant report

Variant	esv3446083
Chromosome Location	chr15:41125460-41127508
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr15:41126661-41126703	LNCaP	prostate:	n/a	n/a
2	FOS	chr15:41127475-41127883	MCF10A-Er-Src	breast:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
3	FOS	chr15:41127459-41127892	MCF10A-Er-Src	breast:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
4	FOS	chr15:41127479-41127900	Hela-S3	cervix:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
5	FOS	chr15:41127461-41127890	MCF10A-Er-Src	breast:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
6	FOS	chr15:41127459-41128048	MCF10A-Er-Src	breast:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
7	FOSL1	chr15:41127421-41127950	HCT-116	colon:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
8	FOSL2	chr15:41127493-41127949	MCF-7	breast:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
9	GATA3	chr15:41125069-41125507	SK-N-SH	brain:	n/a	chr15:41125281-41125288 chr15:41125308-41125315 chr15:41125279-41125289 chr15:41125301-41125322 chr15:41125306-41125316 chr15:41125308-41125315 chr15:41125277-41125290 chr15:41125308-41125315 chr15:41125279-41125288 chr15:41125303-41125319
10	JUND	chr15:41127492-41127952	HCT-116	colon:	n/a	chr15:41127707-41127714 chr15:41127719-41127728 chr15:41127707-41127715 chr15:41127706-41127717 chr15:41127707-41127715 chr15:41127708-41127719
11	MYC	chr15:41127462-41127796	MCF10A-Er-Src	breast:	n/a	n/a
12	MYC	chr15:41127463-41127915	MCF10A-Er-Src	breast:	n/a	n/a
13	SP1	chr15:41127407-41127880	HCT-116	colon:	n/a	n/a
14	STAT3	chr15:41127470-41127846	MCF10A-Er-Src	breast:	n/a	chr15:41127719-41127727
15	TCF7L2	chr15:41127503-41127747	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:41126177..41127950-chr15:41132376..41135206,2	MCF-7	breast:
2	chr15:41115426..41119374-chr15:41121588..41125494,4	MCF-7	breast:
3	chr15:41127361..41129926-chr15:41131042..41133527,3	K562	blood:
4	chr15:41126606..41128704-chr15:41135516..41137561,2	K562	blood:
5	chr15:41127340..41129810-chr15:41135793..41138120,3	MCF-7	breast:
6	chr15:41127204..41130977-chr15:41135554..41137561,3	K562	blood:
7	chr15:41124557..41126932-chr15:41129438..41132345,2	K562	blood:
8	chr15:41100215..41102460-chr15:41122818..41125777,2	K562	blood:
9	chr15:41119625..41122086-chr15:41123755..41126786,3	K562	blood:

Variant related genes	Relation type
PPP1R14D	TF binding region
ENSG00000166145	chromatin interactions
ENSG00000166143	chromatin interactions
ENSG00000261183	chromatin interactions
ENSG00000166140	chromatin interactions

Extended variants
information (count: 120 )
Associated
traits (count: 70 )

Variant overlapped rSNPs/rCNVs (count:120 , 50 per page) page: 1 2 3

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs184599109	chr15:41125513-41125514	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
2	rs560542571	chr15:41125519-41125520	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
3	rs532449261	chr15:41125521-41125522	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
4	rs545883456	chr15:41125568-41125569	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
5	rs536965813	chr15:41125588-41125589	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
6	rs369012385	chr15:41125594-41125595	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
7	rs35433815	chr15:41125598-41125599	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	mRNA abundance
8	rs567181319	chr15:41125602-41125603	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
9	rs530003193	chr15:41125603-41125604	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
10	rs546622373	chr15:41125606-41125607	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
11	rs190334866	chr15:41125609-41125610	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
12	rs538286475	chr15:41125620-41125621	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
13	rs558660980	chr15:41125649-41125650	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
14	rs568997932	chr15:41125653-41125654	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
15	rs55724839	chr15:41125664-41125665	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
16	rs535753156	chr15:41125681-41125682	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
17	rs555212320	chr15:41125688-41125689	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
18	rs8028543	chr15:41125696-41125697	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
19	rs575524421	chr15:41125709-41125710	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
20	rs373204264	chr15:41125717-41125718	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
21	rs540919132	chr15:41125736-41125737	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
22	rs149323058	chr15:41125747-41125748	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
23	rs539626833	chr15:41125751-41125752	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
24	rs371143502	chr15:41125759-41125760	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
25	rs572847982	chr15:41125766-41125767	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
26	rs545822051	chr15:41125768-41125769	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a
27	rs369330722	chr15:41125789-41125790	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
28	rs112116056	chr15:41125801-41125802	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
29	rs397935672	chr15:41125804-41125805	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
30	rs562608720	chr15:41125823-41125824	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
31	rs540261366	chr15:41125851-41125852	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
32	rs181851607	chr15:41125882-41125883	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
33	rs199768465	chr15:41125883-41125884	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
34	rs373792791	chr15:41125904-41125905	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
35	rs543954499	chr15:41125909-41125910	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
36	rs376179254	chr15:41125917-41125918	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
37	rs78330400	chr15:41125926-41125927	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
38	rs529886468	chr15:41125927-41125928	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
39	rs546856595	chr15:41125934-41125935	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
40	rs148029713	chr15:41125944-41125945	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
41	rs558788379	chr15:41125949-41125950	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
42	rs532102624	chr15:41126008-41126009	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
43	rs12905621	chr15:41126060-41126061	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
44	rs568934016	chr15:41126063-41126064	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
45	rs55734356	chr15:41126074-41126075	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	mRNA abundance
46	rs139979586	chr15:41126116-41126117	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
47	rs568631083	chr15:41126122-41126123	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
48	rs534162679	chr15:41126139-41126140	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
49	rs184286438	chr15:41126144-41126145	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
50	rs577483418	chr15:41126199-41126200	Weak transcription Enhancers	Chromatin interactive region	2 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:70)

Disease	PMID	Source
HDAC8	0	CNVD
NIPBL	0	CNVD
RAD21	0	CNVD
SMC1A	0	CNVD
SMC3	0	CNVD
Ewing''s sarcoma	21437220	CNVD
Schizophrenia	19415332	CNVD
Breast cancer	22522925	CNVD
Autism	22495311	CNVD
Wilms tumour	21544195	CNVD
Angelman syndrome	16183798	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Testicular germ cell tumor	18059402	CNVD
cataract	16735990	CNVD
Cancer	21637783	CNVD
Colorectal cancer	20709793	CNVD
Medulloblastoma	21979893	CNVD
spastic paraplegia with thinning of corpus callosum	19105190	CNVD
Schizophrenia	21324950	CNVD
Astrocytoma	17387387	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Disease	21824424	CNVD
Melanoma	18172304	CNVD
Colorectal cancer	16774939	CNVD
Gastric cancer	17167181	CNVD
Neuroblastoma	19435921	CNVD
Colorectal cancer	19359472	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Multiple myeloma	17077331	CNVD
Colorectal cancer	16272173	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Multiple myeloma	17550852	CNVD
Intellectual disability	22102821	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Acute myeloid leukemia	20729466	CNVD
Prostate cancer	16573809	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Multiple myeloma	20724749	CNVD
Lung cancer	18438408	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Breast cancer	21785460	CNVD
Gastrointestinal stromal cancer	16982739	CNVD
Ovarian cancer	22174824	CNVD
Prostate cancer	18632612	CNVD
small cell lung cancer	20016488	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Basal cell lymphoma	17053054	CNVD
Acute lymphoblastic leukemia	18458336	CNVD
lymphocytic leukemia	21291569	CNVD
Cancer	20164920	CNVD
Hodgkin''s lymphoma	18641027	CNVD
Cancer	21129771	CNVD
Papillary thyroid carcinoma	22161024	CNVD
Splenic marginal zone lymphoma	21957467	CNVD
Breast cancer	21045282	CNVD
Breast cancer	22032731	CNVD
low-grade B-cell lymphoma tumor	18367492	CNVD
Gastrointestinal stromal cancer	20877625	CNVD
Multiple myeloma	16616336	CNVD
Renal cell carcinoma	18765545	CNVD
Basal cell lymphoma	17170743	CNVD
Follicular lymphoma	17170743	CNVD
Chronic lymphocytic leukemia	20421269	CNVD
Glioblastoma multiforme	21510904	CNVD
Pancreatic cancer	17952125	CNVD
Non-syndromic sensorineural hearing loss	18451855	CNVD

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41107200-41135200	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr15:41107600-41135200	Weak transcription	Esophagus	oesophagus
3	chr15:41108200-41135600	Weak transcription	Spleen	Spleen
4	chr15:41112000-41135800	Weak transcription	Right Atrium	heart
5	chr15:41119200-41126800	Weak transcription	Hela-S3	cervix
6	chr15:41120800-41135600	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr15:41121600-41129800	Weak transcription	Duodenum Mucosa	Duodenum
8	chr15:41121600-41135200	Weak transcription	Colonic Mucosa	Colon
9	chr15:41121600-41135200	Weak transcription	Gastric	stomach
10	chr15:41121600-41135200	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:41121800-41135200	Weak transcription	Stomach Mucosa	stomach
12	chr15:41122200-41126600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr15:41122800-41135000	Weak transcription	Fetal Intestine Large	intestine
14	chr15:41123200-41135600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr15:41123600-41135000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr15:41124000-41127400	Enhancers	Placenta	Placenta
17	chr15:41124800-41127800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr15:41124800-41128200	Weak transcription	Fetal Intestine Small	intestine
19	chr15:41124800-41135200	Weak transcription	Pancreas	Pancrea
20	chr15:41125200-41125600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:41125400-41126800	Weak transcription	NHEK	skin
22	chr15:41125600-41127000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr15:41126600-41128400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr15:41126800-41127000	Enhancers	Hela-S3	cervix
25	chr15:41126800-41128400	Enhancers	HMEC	breast
26	chr15:41126800-41128400	Enhancers	NHEK	skin
27	chr15:41127000-41127400	Weak transcription	Hela-S3	cervix
28	chr15:41127000-41128000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr15:41127000-41128200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr15:41127000-41128600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr15:41127400-41128600	Enhancers	Hela-S3	cervix
32	chr15:41127400-41131000	Weak transcription	Placenta	Placenta

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