Variant report

Variant	nsv466483
Chromosome Location	chr1:189036365-189128124
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:374)
CpG islands
(count:0)
Chromatin interactive
region (count:35)
LncRNA
region (count:4)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:374 , 50 per page) page: 1 2 3 4 5 6 7 8

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ARID3A	chr1:189118670-189118888	K562	blood:	n/a	n/a
2	ATF1	chr1:189118704-189119125	K562	blood:	n/a	n/a
3	BCLAF1	chr1:189118637-189119186	K562	blood:	n/a	n/a
4	BHLHE40	chr1:189118889-189119095	K562	blood:	n/a	n/a
5	CBX3	chr1:189118641-189119561	K562	blood:	n/a	n/a
6	CBX3	chr1:189094793-189095258	HCT-116	colon:	n/a	n/a
7	CBX3	chr1:189118747-189119060	K562	blood:	n/a	n/a
8	CEBPB	chr1:189118695-189119077	K562	blood:	n/a	n/a
9	CEBPB	chr1:189118636-189118957	K562	blood:	n/a	n/a
10	CEBPB	chr1:189038175-189038498	HepG2	liver:	n/a	chr1:189038330-189038343 chr1:189038331-189038342 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341
11	CEBPB	chr1:189055124-189055368	A549	lung:	n/a	n/a
12	CEBPB	chr1:189038213-189038480	K562	blood:	n/a	chr1:189038330-189038343 chr1:189038331-189038342 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341
13	CEBPB	chr1:189038185-189038511	IMR90	lung:	n/a	chr1:189038330-189038343 chr1:189038331-189038342 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341
14	CEBPB	chr1:189038196-189038503	A549	lung:	n/a	chr1:189038330-189038343 chr1:189038331-189038342 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341 chr1:189038332-189038341
15	CEBPD	chr1:189118669-189119222	K562	blood:	n/a	n/a
16	CHD2	chr1:189109985-189110031	K562	blood:	n/a	n/a
17	CHD2	chr1:189118851-189119132	H1-hESC	embryonic stem cell:	n/a	n/a
18	CHD2	chr1:189118857-189119073	K562	blood:	n/a	n/a
19	CREB1	chr1:189118777-189119112	A549	lung:	n/a	n/a
20	CTCF	chr1:189118716-189119243	K562	blood:	n/a	n/a
21	CTCF	chr1:189118871-189119124	A549	lung:	n/a	n/a
22	CTCF	chr1:189118833-189119271	MCF-7	breast:	n/a	n/a
23	CTCF	chr1:189118895-189119165	MCF-7	breast:	n/a	n/a
24	CTCF	chr1:189119040-189119190	RPTEC	kidney:	n/a	n/a
25	CTCF	chr1:189119000-189119150	Caco-2	colon:	n/a	n/a
26	CTCF	chr1:189054645-189055127	HCT-116	colon:	n/a	chr1:189054854-189054875
27	CTCF	chr1:189118960-189119110	K562	blood:	n/a	n/a
28	CTCF	chr1:189118994-189119120	GM19238	blood:	n/a	n/a
29	CTCF	chr1:189118960-189119110	NB4	blood:	n/a	n/a
30	CTCF	chr1:189118943-189119160	K562	blood:	n/a	n/a
31	CTCF	chr1:189118841-189119319	T-47D	breast:	n/a	n/a
32	CTCF	chr1:189054679-189055027	MCF-7	breast:	n/a	chr1:189054854-189054875
33	CTCF	chr1:189119020-189119170	HBMEC	blood vessel:	n/a	n/a
34	CTCF	chr1:189118941-189119159	GM12891	blood:	n/a	n/a
35	CTCF	chr1:189118960-189119110	A549	lung:	n/a	n/a
36	CTCF	chr1:189118940-189119090	RPTEC	kidney:	n/a	n/a
37	CTCF	chr1:189118980-189119130	GM12875	blood:	n/a	n/a
38	CTCF	chr1:189061934-189062038	Kidney_OC	kidney:	n/a	n/a
39	CTCF	chr1:189119020-189119170	GM12878	blood:	n/a	n/a
40	CTCF	chr1:189047540-189047690	AoAF	blood vessel:	n/a	n/a
41	CTCF	chr1:189070334-189070403	Lung_OC	lung:	n/a	n/a
42	CTCF	chr1:189118937-189119192	Gliobla	brain:	n/a	n/a
43	CTCF	chr1:189054780-189054930	MCF-7	breast:	n/a	chr1:189054854-189054875
44	CTCF	chr1:189118960-189119110	GM12869	blood:	n/a	n/a
45	CTCF	chr1:189118834-189119203	A549	lung:	n/a	n/a
46	CTCF	chr1:189118980-189119130	HCPEpiC	choroid plexus:	n/a	n/a
47	CTCF	chr1:189118980-189119130	GM12878	blood:	n/a	n/a
48	CTCF	chr1:189118958-189119138	MCF-7	breast:	n/a	n/a
49	CTCF	chr1:189119000-189119096	GM13977	blood:	n/a	n/a
50	CTCF	chr1:189118794-189119175	H1-hESC	embryonic stem cell:	n/a	n/a

No data

(count:35 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:189103992..189106373-chr1:189109756..189111271,2	MCF-7	breast:
2	chr1:189117897..189121261-chr1:189121594..189126238,14	K562	blood:
3	chr1:189110161..189112248-chr17:56736351..56738349,2	MCF-7	breast:
4	chr1:189117678..189120245-chr1:189847842..189850269,2	K562	blood:
5	chr1:188751072..188751772-chr1:189118548..189119200,2	MCF-7	breast:
6	chr1:189121464..189123287-chr1:189388904..189390413,2	K562	blood:
7	chr1:189051136..189054044-chr1:189118022..189120373,2	K562	blood:
8	chr1:189117456..189122192-chr1:189126377..189132093,10	K562	blood:
9	chr1:189117456..189122192-chr1:189126377..189132093,10	K562	blood:
10	chr1:189078335..189080710-chr1:189084849..189087799,2	K562	blood:
11	chr1:189055283..189057511-chr1:189118631..189120197,2	K562	blood:
12	chr1:189032912..189034690-chr1:189118689..189120245,2	K562	blood:
13	chr1:189118692..189120237-chr1:189161776..189163535,2	K562	blood:
14	chr1:189112586..189116347-chr1:189117211..189120686,6	K562	blood:
15	chr1:189055283..189057511-chr1:189118631..189120197,2	K562	blood:
16	chr1:189109069..189111895-chr1:189118017..189120459,2	K562	blood:
17	chr1:189118758..189120623-chr1:189121928..189123602,2	MCF-7	breast:
18	chr1:189067488..189069433-chr1:189071978..189073549,2	K562	blood:
19	chr1:189109069..189111895-chr1:189118017..189120459,2	K562	blood:
20	chr1:189112586..189116347-chr1:189117211..189120686,6	K562	blood:
21	chr1:187897177..187897914-chr1:189054892..189055529,2	MCF-7	breast:
22	chr1:189117897..189121261-chr1:189121594..189126238,14	K562	blood:
23	chr1:189117659..189120234-chr6:30584654..30587422,2	K562	blood:
24	chr1:189051136..189054044-chr1:189118022..189120373,2	K562	blood:
25	chr1:189118996..189121109-chr1:189287929..189290792,2	K562	blood:
26	chr1:188902220..188904596-chr1:189118871..189120838,2	K562	blood:
27	chr1:189027854..189030529-chr1:189039062..189041811,2	K562	blood:
28	chr1:189117472..189119445-chr1:189184383..189186495,2	K562	blood:
29	chr1:189116028..189120237-chr1:189160506..189163276,3	K562	blood:
30	chr1:188432976..188433772-chr1:189118543..189119245,2	MCF-7	breast:
31	chr1:189118758..189120623-chr1:189121928..189123602,2	MCF-7	breast:
32	chr1:189078335..189080710-chr1:189084849..189087799,2	K562	blood:
33	chr1:189119463..189122039-chr1:189394507..189396400,2	K562	blood:
34	chr1:189103992..189106373-chr1:189109756..189111271,2	MCF-7	breast:
35	chr1:189067488..189069433-chr1:189071978..189073549,2	K562	blood:

(count:4 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PLA2G4A-7	chr1:189119673-189119860	XLOC_000502
2	lnc-PLA2G4A-7	chr1:189118917-189119007	XLOC_000502
3	lnc-PLA2G4A-17	chr1:189035554-189037410	refGeneNc_416_NR_033922
4	lnc-PLA2G4A-7	chr1:189119674-189119918	NONHSAT008484

No data

Variant related genes	Relation type
ENSG00000226196	TF binding region
ENSG00000204569	chromatin interactions
ENSG00000204568	chromatin interactions
ENSG00000202077	chromatin interactions

Extended variants
information (count: 1026 )
Associated
traits (count: 90 )

Variant overlapped rSNPs/rCNVs (count:1026 , 50 per page) page: 1 2 3 4 5 6 7 ... 21

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs10921204	chr1:189036365-189036366	Inactive region	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs559241608	chr1:189036377-189036378	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
3	rs576001768	chr1:189036392-189036393	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
4	rs373632092	chr1:189036414-189036415	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
5	rs200762248	chr1:189036437-189036438	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
6	rs141609033	chr1:189036440-189036441	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
7	rs369202763	chr1:189036443-189036444	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
8	rs544957827	chr1:189036444-189036445	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
9	rs72731782	chr1:189036459-189036460	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
10	rs530064068	chr1:189036472-189036473	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
11	rs540685119	chr1:189036525-189036526	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
12	rs560389195	chr1:189036530-189036531	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
13	rs528223185	chr1:189036547-189036548	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
14	rs551155888	chr1:189036559-189036560	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
15	rs113534093	chr1:189036575-189036576	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
16	rs530698064	chr1:189036576-189036577	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
17	rs71658687	chr1:189036593-189036594	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
18	rs7520979	chr1:189036614-189036615	Inactive region	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
19	rs111463948	chr1:189036685-189036686	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
20	rs185027412	chr1:189036780-189036781	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
21	rs112198217	chr1:189036828-189036829	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
22	rs117252082	chr1:189036845-189036846	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
23	rs552985841	chr1:189036846-189036847	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
24	rs566442152	chr1:189036877-189036878	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
25	rs10921205	chr1:189036887-189036888	Inactive region	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
26	rs559182115	chr1:189036938-189036939	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
27	rs575939044	chr1:189036968-189036969	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
28	rs561121930	chr1:189037002-189037003	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
29	rs554977432	chr1:189037038-189037039	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
30	rs145895387	chr1:189037042-189037043	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
31	rs540269552	chr1:189037046-189037047	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
32	rs190316955	chr1:189037051-189037052	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
33	rs576917228	chr1:189037053-189037054	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
34	rs192955419	chr1:189037084-189037085	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
35	rs10801130	chr1:189037105-189037106	Inactive region	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
36	rs576942514	chr1:189037109-189037110	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
37	rs185632603	chr1:189037132-189037133	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
38	rs550811119	chr1:189037278-189037279	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
39	rs559151351	chr1:189037298-189037299	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
40	rs138718858	chr1:189037316-189037317	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
41	rs200951427	chr1:189037361-189037362	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
42	rs189624545	chr1:189037409-189037410	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
43	rs554506506	chr1:189044404-189044405	Enhancers	n/a	n/a	Overlapped CNVs	n/a
44	rs147651258	chr1:189044412-189044413	Enhancers	n/a	n/a	Overlapped CNVs	n/a
45	rs74138970	chr1:189044455-189044456	Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
46	rs181645557	chr1:189044456-189044457	Enhancers	n/a	n/a	Overlapped CNVs	n/a
47	rs186225100	chr1:189044492-189044493	Enhancers	n/a	n/a	Overlapped CNVs	n/a
48	rs35745641	chr1:189044493-189044494	Enhancers	n/a	n/a	Overlapped CNVs	n/a
49	rs576932699	chr1:189044544-189044545	Enhancers	n/a	n/a	Overlapped CNVs	n/a
50	rs5779456	chr1:189044555-189044556	Enhancers	n/a	n/a	Overlapped CNVs	n/a

Variant related diseases (count:90)

Disease	PMID	Source
Breast cancer	17603634	CNVD
Esophageal squamous carcinoma	21637470	CNVD
HIV/AIDS	22032296	CNVD
Schizophrenia	19415332	CNVD
Autism	22495311	CNVD
Liposarcoma	21253554	CNVD
Burkitt''s lymphoma	18698080	CNVD
Melanoma	18172304	CNVD
Rett syndrome	21593744	CNVD
Cancer	20164919	CNVD
Medulloblastoma	21979893	CNVD
Acute lymphoblastic leukemia	17443227	CNVD
Wilms tumour	21544195	CNVD
Breast cancer	17133270	CNVD
Carcinoma ex pleomorphic adenoma	18828159	CNVD
Non-small cell lung cancer	21044232	CNVD
Cervical cancer	21063398	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	20632083	CNVD
Endometrial cancer	22040021	CNVD
Ewing''s sarcoma	21437220	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Glioblastoma multiforme	19960244	CNVD
Glioblastoma multiforme	21080181	CNVD
Hepatocellular carcinoma	22174799	CNVD
Medulloblastoma	21292688	CNVD
Phyllodes tumor	17334353	CNVD
Breast cancer	21264507	CNVD
Multiple myeloma	21628407	CNVD
Cancer	16751803	CNVD
Prostate cancer	16705090	CNVD
Neuroblastoma	19435921	CNVD
Breast cancer	17850661	CNVD
Breast cancer	16461572	CNVD
Intracranial tumor	16823260	CNVD
Medulloblastoma	18056178	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Primary mediastinal b-cell lymphoma	17728785	CNVD
Colorectal cancer	16272173	CNVD
Acute lymphoblastic leukemia	21098271	CNVD
Neuroblastoma	21899760	CNVD
Ovarian neoplasms	16753589	CNVD
Glioblastoma multiforme	17002787	CNVD
Breast cancer	21858162	CNVD
Non-small cell lung cancer	21385341	CNVD
Acute lymphoblastic leukemia	21980252	CNVD
Breast cancer	16608533	CNVD
Ewing''s sarcoma	22429812	CNVD
Acute promyelocytic leukemia	19109227	CNVD
Hepatocellular carcinoma	18803288	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	17001317	CNVD
Acute myeloid leukemia	21251322	CNVD
Multiple myeloma	17550852	CNVD
Prostate cancer	18632612	CNVD
Acute myeloid leukemia	20729466	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Testicular germ cell tumor	18059402	CNVD
Ependymoma	18628472	CNVD
Leukemia	18628472	CNVD
Neuroblastoma	18923191	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Ewing''s sarcoma	17952124	CNVD
Acute lymphoblastic leukemia	19100363	CNVD
Lung cancer	18438408	CNVD
Breast cancer	21509527	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Metanephric adenoma	20802469	CNVD
Melanoma	20688739	CNVD
small cell lung cancer	20016488	CNVD
Breast cancer	21611746	CNVD
primary effusion lymphomas	17116491	CNVD
Breast cancer	17393978	CNVD
Hepatocellular carcinoma	16750200	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Breast cancer	17899364	CNVD
Non-small cell lung cancer	19010865	CNVD
Mental retardation	17847001	CNVD
Basal cell lymphoma	17170743	CNVD
Follicular lymphoma	17170743	CNVD
Trisomy 5 syndrome	21098271	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Cutaneous T-cell lymphoma	21881587	CNVD
Lung adenocarcinoma	17086460	CNVD
Glioblastoma multiforme	22286061	CNVD
Pancreatic ductal adenocarcinoma	19077451	CNVD
Non-syndromic sensorineural hearing loss	22037309	CNVD
Non-syndromic sensorineural hearing loss	21293372	CNVD

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:189044400-189045000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr1:189055000-189055600	Enhancers	Fetal Brain Male	brain
3	chr1:189091000-189092000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:189091200-189091800	Enhancers	Placenta Amnion	Placenta Amnion
5	chr1:189098000-189102000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:189106200-189110600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr1:189110400-189111000	ZNF genes & repeats	Pancreas	Pancrea
8	chr1:189110600-189111000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:189111000-189118800	Weak transcription	Pancreas	Pancrea
10	chr1:189115600-189116600	Enhancers	Brain Germinal Matrix	brain
11	chr1:189118400-189120000	Active TSS	Pancreatic Islets	Pancreatic Islet
12	chr1:189118800-189119200	Active TSS	iPS-15b Cell Line	embryonic stem cell
13	chr1:189118800-189119200	Active TSS	Liver	Liver
14	chr1:189118800-189119200	Active TSS	Gastric	stomach
15	chr1:189118800-189119400	Active TSS	Duodenum Mucosa	Duodenum
16	chr1:189118800-189119400	Active TSS	Fetal Intestine Large	intestine
17	chr1:189118800-189119400	ZNF genes & repeats	Pancreas	Pancrea
18	chr1:189118800-189119400	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr1:189118800-189120200	Active TSS	A549	lung
20	chr1:189118800-189121800	Active TSS	K562	blood
21	chr1:189127200-189127600	Active TSS	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links