Variant report

Variant	nsv569445
Chromosome Location	chr15:53974567-53985450
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:28)
CpG islands
(count:0)
Chromatin interactive
region (count:1)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:28 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA2	chr15:53976442-53977238	A549	lung:	n/a	n/a
2	FOXA2	chr15:53976578-53977127	A549	lung:	n/a	n/a
3	MYC	chr15:53976527-53976589	MCF-7	breast:	n/a	n/a
4	POLR2A	chr15:53976365-53976543	H1-hESC	embryonic stem cell:	n/a	n/a
5	POLR2A	chr15:53976466-53976847	H1-hESC	embryonic stem cell:	n/a	n/a
6	POLR2A	chr15:53976371-53976606	A549	lung:	n/a	n/a
7	POLR2A	chr15:53976439-53976578	MCF-7	breast:	n/a	n/a
8	POLR2A	chr15:53983285-53983385	A549	lung:	n/a	n/a
9	POLR2A	chr15:53977143-53977156	A549	lung:	n/a	n/a
10	POLR2A	chr15:53976502-53976560	A549	lung:	n/a	n/a
11	POLR2A	chr15:53977060-53977117	A549	lung:	n/a	n/a
12	POLR2A	chr15:53976380-53976392	MCF-7	breast:	n/a	n/a
13	POLR2A	chr15:53977137-53977141	A549	lung:	n/a	n/a
14	POLR2A	chr15:53976416-53976431	MCF-7	breast:	n/a	n/a
15	POLR2A	chr15:53976900-53977056	H1-hESC	embryonic stem cell:	n/a	n/a
16	POLR2A	chr15:53976892-53977119	H1-hESC	embryonic stem cell:	n/a	n/a
17	REST	chr15:53976884-53977021	H1-hESC	embryonic stem cell:	n/a	n/a
18	REST	chr15:53980751-53980894	H1-hESC	embryonic stem cell:	n/a	n/a
19	RXRA	chr15:53976876-53977076	HepG2	liver:	n/a	n/a
20	SETDB1	chr15:53975007-53975789	U2OS	brain:	n/a	n/a
21	SP1	chr15:53980725-53980909	HepG2	liver:	n/a	n/a
22	SP1	chr15:53976855-53977119	HepG2	liver:	n/a	n/a
23	STAT3	chr15:53985100-53985299	MCF10A-Er-Src	breast:	n/a	n/a
24	TAF1	chr15:53976337-53976685	H1-hESC	embryonic stem cell:	n/a	n/a
25	YY1	chr15:53976292-53976463	HCT-116	colon:	n/a	n/a
26	YY1	chr15:53976204-53976796	A549	lung:	n/a	n/a
27	YY1	chr15:53976208-53976475	A549	lung:	n/a	n/a
28	ZBTB33	chr15:53976864-53977110	HepG2	liver:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:53984291..53986517-chr15:53987767..53990202,2	MCF-7	breast:

No data

Variant related genes	Relation type
WDR72	TF binding region

Extended variants
information (count: 510 )
Associated
traits (count: 63 )

Variant overlapped rSNPs/rCNVs (count:510 , 50 per page) page: 1 2 3 4 5 6 7 ... 11

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs528829869	chr15:53974573-53974574	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
2	rs368569719	chr15:53974581-53974582	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs78049578	chr15:53974601-53974602	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs569578743	chr15:53974621-53974622	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs532245146	chr15:53974625-53974626	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs552068044	chr15:53974643-53974644	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs143804888	chr15:53974648-53974649	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs7180008	chr15:53974673-53974674	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
9	rs201461548	chr15:53974712-53974713	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs568529889	chr15:53974727-53974728	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs192690183	chr15:53974736-53974737	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs557297151	chr15:53974784-53974785	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs60122973	chr15:53974836-53974837	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs546480572	chr15:53974861-53974862	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs114482244	chr15:53974872-53974873	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs58604383	chr15:53974882-53974883	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
17	rs2126187	chr15:53974893-53974894	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
18	rs35811952	chr15:53974933-53974934	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs562177798	chr15:53974967-53974968	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs574452289	chr15:53974972-53974973	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
21	rs543173868	chr15:53974973-53974974	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
22	rs151099048	chr15:53974990-53974991	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
23	rs80059366	chr15:53974992-53974993	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
24	rs556513649	chr15:53975008-53975009	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
25	rs552004614	chr15:53975025-53975026	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
26	rs141345200	chr15:53975053-53975054	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
27	rs2447053	chr15:53975084-53975085	Weak transcription Strong transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
28	rs548345556	chr15:53975186-53975187	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
29	rs78991149	chr15:53975192-53975193	Weak transcription Strong transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
30	rs184984855	chr15:53975219-53975220	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
31	rs550807885	chr15:53975222-53975223	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
32	rs79059634	chr15:53975240-53975241	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
33	rs539840320	chr15:53975276-53975277	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
34	rs140126618	chr15:53975287-53975288	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
35	rs553020683	chr15:53975292-53975293	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
36	rs116353246	chr15:53975297-53975298	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
37	rs573562693	chr15:53975316-53975317	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
38	rs535799868	chr15:53975370-53975371	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
39	rs74015881	chr15:53975388-53975389	Weak transcription Strong transcription Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
40	rs12437464	chr15:53975404-53975405	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
41	rs138845545	chr15:53975408-53975409	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
42	rs76983488	chr15:53975420-53975421	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
43	rs186550603	chr15:53975433-53975434	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
44	rs576575475	chr15:53975435-53975436	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
45	rs28470509	chr15:53975439-53975440	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
46	rs115661868	chr15:53975451-53975452	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
47	rs377288261	chr15:53975464-53975465	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
48	rs191378697	chr15:53975465-53975466	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
49	rs141972968	chr15:53975501-53975502	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a
50	rs112047025	chr15:53975518-53975519	Weak transcription Strong transcription Active TSS Flanking Active TSS	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:63)

Disease	PMID	Source
Ewing''s sarcoma	21437220	CNVD
Schizophrenia	19415332	CNVD
Breast cancer	22522925	CNVD
Autism	22495311	CNVD
Wilms tumour	21544195	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
Gastrointestinal stromal cancer	16982739	CNVD
Prostate cancer	18632612	CNVD
small cell lung cancer	20016488	CNVD
Basal cell lymphoma	17053054	CNVD
Breast cancer	22032731	CNVD
Basal cell lymphoma	17170743	CNVD
Follicular lymphoma	17170743	CNVD
Hirschsprung''s Disease	21712996	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Cancer	21129771	CNVD
Breast cancer	16272173	CNVD
Hepatocellular carcinoma	16750200	CNVD
Abnormal phenotypes	18644119	CNVD
Cancer	16751803	CNVD
Esophageal adenocarcinoma	18820669	CNVD
Gastrointestinal stromal cancer	20818650	CNVD
Myelofibrosis	22110671	CNVD
Acute monocytic leukemia	16498392	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Breast cancer	17133270	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Lung cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Pancreatic cancer	17952125	CNVD

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53959600-53986200	Weak transcription	Pancreas	Pancrea
2	chr15:53973600-53983200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:53974000-53975600	Strong transcription	Liver	Liver
4	chr15:53974400-53975200	Enhancers	A549	lung
5	chr15:53975200-53975600	Flanking Active TSS	A549	lung
6	chr15:53975400-53976600	Active TSS	Duodenum Mucosa	Duodenum
7	chr15:53975600-53976600	Active TSS	A549	lung
8	chr15:53975600-53982600	Weak transcription	Liver	Liver
9	chr15:53976000-53977200	Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr15:53976200-53976600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
11	chr15:53976400-53977000	Active TSS	H9 Cell Line	embryonic stem cell
12	chr15:53976400-53977000	Active TSS	HUES6 Cell Line	embryonic stem cell
13	chr15:53976600-53990600	Weak transcription	A549	lung
14	chr15:53976800-53977200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:53977000-53977200	Flanking Active TSS	H9 Cell Line	embryonic stem cell
16	chr15:53977000-53977200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
17	chr15:53982600-53985000	Strong transcription	Liver	Liver
18	chr15:53983200-53983600	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:53983600-53986400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:53984200-53988600	Enhancers	Fetal Heart	heart
21	chr15:53985000-53986000	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links