Variant report

Variant	nsv585760
Chromosome Location	chr20:25892571-25949274
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	BATF	chr20:25914679-25914959	GM12878	blood:	n/a	n/a
2	BATF	chr20:25914607-25914931	GM12878	blood:	n/a	n/a
3	BCL3	chr20:25945773-25946163	GM12878	blood:	n/a	n/a
4	CEBPB	chr20:25933076-25933229	HepG2	liver:	n/a	chr20:25933144-25933155
5	CEBPB	chr20:25942378-25942614	HepG2	liver:	n/a	chr20:25942454-25942467 chr20:25942454-25942465
6	CEBPB	chr20:25906579-25906779	K562	blood:	n/a	n/a
7	CEBPB	chr20:25942443-25942488	A549	lung:	n/a	chr20:25942454-25942467 chr20:25942454-25942465
8	CTCF	chr20:25917798-25917843	Lung_OC	lung:	n/a	n/a
9	CTCF	chr20:25905400-25905550	HFF	foreskin:	n/a	n/a
10	CTCF	chr20:25944564-25944572	GM13977	blood:	n/a	n/a
11	CTCF	chr20:25944510-25944532	Kidney_OC	kidney:	n/a	n/a
12	CTCF	chr20:25944435-25944503	Kidney_OC	kidney:	n/a	n/a
13	CTCF	chr20:25931899-25931915	LNCaP	prostate:	n/a	n/a
14	CTCF	chr20:25904320-25904470	AG10803	skin:	n/a	n/a
15	FOS	chr20:25912827-25913157	MCF10A-Er-Src	breast:	n/a	n/a
16	FOS	chr20:25912856-25913104	MCF10A-Er-Src	breast:	n/a	n/a
17	FOS	chr20:25912847-25913160	MCF10A-Er-Src	breast:	n/a	n/a
18	FOXA1	chr20:25934700-25934925	T-47D	breast:	n/a	n/a
19	FOXA1	chr20:25895564-25895827	HepG2	liver:	n/a	n/a
20	FOXA1	chr20:25934647-25934893	T-47D	breast:	n/a	n/a
21	FOXA1	chr20:25895548-25895853	HepG2	liver:	n/a	n/a
22	GATA2	chr20:25911148-25911497	K562	blood:	n/a	n/a
23	GATA2	chr20:25943882-25944206	K562	blood:	n/a	chr20:25943937-25943958
24	GATA2	chr20:25942974-25943298	K562	blood:	n/a	n/a
25	GATA3	chr20:25934413-25935005	T-47D	breast:	n/a	chr20:25934582-25934595
26	GATA3	chr20:25934512-25934894	T-47D	breast:	n/a	chr20:25934582-25934595
27	GATA3	chr20:25934515-25934795	MCF-7	breast:	n/a	chr20:25934582-25934595
28	GATA3	chr20:25934440-25934913	MCF-7	breast:	n/a	chr20:25934582-25934595
29	GATA3	chr20:25910449-25910615	SH-SY5Y	brain:	n/a	n/a
30	GATA3	chr20:25934470-25934880	MCF-7	breast:	n/a	chr20:25934582-25934595
31	IRF1	chr20:25899860-25899924	K562	blood:	n/a	n/a
32	JUN	chr20:25895807-25895845	H1-hESC	embryonic stem cell:	n/a	n/a
33	JUND	chr20:25901778-25901930	HepG2	liver:	n/a	n/a
34	MAFF	chr20:25937839-25937995	HepG2	liver:	n/a	chr20:25937926-25937944 chr20:25937932-25937946
35	MAFK	chr20:25929463-25929603	HepG2	liver:	n/a	n/a
36	MAFK	chr20:25899710-25899896	HepG2	liver:	n/a	n/a
37	MAFK	chr20:25937893-25937986	HepG2	liver:	n/a	chr20:25937931-25937947 chr20:25937932-25937946 chr20:25937928-25937943 chr20:25937929-25937949
38	MAFK	chr20:25937351-25937437	HepG2	liver:	n/a	n/a
39	MAFK	chr20:25929516-25929567	HepG2	liver:	n/a	n/a
40	MAFK	chr20:25937941-25937978	HepG2	liver:	n/a	n/a
41	MAFK	chr20:25937288-25937477	HepG2	liver:	n/a	n/a
42	MYC	chr20:25912848-25913105	MCF10A-Er-Src	breast:	n/a	n/a
43	MYC	chr20:25913594-25913617	K562	blood:	n/a	n/a
44	POLR2A	chr20:25945966-25946047	A549	lung:	n/a	n/a
45	POLR2A	chr20:25897683-25897784	A549	lung:	n/a	n/a
46	POLR2A	chr20:25937190-25937294	Gliobla	brain:	n/a	n/a
47	POLR2A	chr20:25918297-25918448	MCF10A-Er-Src	breast:	n/a	n/a
48	POLR2A	chr20:25945888-25945912	A549	lung:	n/a	n/a
49	POLR2A	chr20:25929523-25929812	MCF10A-Er-Src	breast:	n/a	n/a
50	POLR2A	chr20:25897686-25897719	Gliobla	brain:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM182A-1	chr20:25943698-25943832	XLOC_013502
2	lnc-FAM182A-1	chr20:25945639-25949923	XLOC_013502
3	lnc-FAM182A-1	chr20:25936453-25936505	XLOC_013502
4	lnc-FAM182A-8	chr20:25893639-25897924	NONHSAT079201
5	lnc-FAM182B-10	chr20:25930850-25930935	NONHSAT079203
6	lnc-FAM182A-1	chr20:25936722-25936846	ENSG00000226203
7	lnc-FAM182A-1	chr20:25936448-25936505	ENSG00000226203
8	lnc-FAM182A-1	chr20:25945639-25949924	ENSG00000226203
9	lnc-FAM182A-1	chr20:25936722-25936846	XLOC_013502
10	lnc-FAM182B-10	chr20:25930172-25930528	NONHSAT079203
11	lnc-FAM182B-11	chr20:25937427-25937691	NONHSAT079205
12	lnc-FAM182A-1	chr20:25943698-25943832	ENSG00000226203
13	lnc-FAM182B-11	chr20:25938891-25939167	NONHSAT079205

Variant related genes	Relation type
CFTRP1	TF binding region
ENSG00000226203	TF binding region

Extended variants
information (count: 994 )
Associated
traits (count: 46 )

Variant overlapped rSNPs/rCNVs (count:994 , 50 per page) page: 1 2 3 4 5 6 7 ... 20

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs75871032	chr20:25893649-25893650	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
2	rs76263281	chr20:25893650-25893651	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
3	rs79818892	chr20:25893664-25893665	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
4	rs532558097	chr20:25893667-25893668	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
5	rs79082202	chr20:25893720-25893721	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
6	rs543702216	chr20:25893726-25893727	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
7	rs76658252	chr20:25893731-25893732	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
8	rs78579488	chr20:25893767-25893768	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
9	rs75633411	chr20:25893781-25893782	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
10	rs569270832	chr20:25893789-25893790	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
11	rs201796198	chr20:25893803-25893804	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
12	rs200185946	chr20:25893807-25893808	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
13	rs6115396	chr20:25893821-25893822	Inactive region	lncRNA	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs74609014	chr20:25893832-25893833	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
15	rs148623779	chr20:25893838-25893839	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
16	rs76579183	chr20:25893855-25893856	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
17	rs568273015	chr20:25893864-25893865	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
18	rs533720974	chr20:25893866-25893867	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
19	rs11698578	chr20:25893880-25893881	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
20	rs200580419	chr20:25893892-25893893	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
21	rs201404730	chr20:25893893-25893894	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
22	rs200040717	chr20:25893896-25893897	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
23	rs554049886	chr20:25893899-25893900	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
24	rs367761099	chr20:25893924-25893925	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
25	rs371964836	chr20:25893939-25893940	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
26	rs113336815	chr20:25893940-25893941	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
27	rs183231833	chr20:25893976-25893977	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
28	rs555789124	chr20:25893978-25893979	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
29	rs4080318	chr20:25893990-25893991	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
30	rs1811851	chr20:25893991-25893992	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
31	rs200025974	chr20:25893995-25893996	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
32	rs3865553	chr20:25894010-25894011	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
33	rs541945680	chr20:25894012-25894013	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
34	rs62212263	chr20:25894027-25894028	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
35	rs141487573	chr20:25894038-25894039	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
36	rs62212264	chr20:25894047-25894048	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
37	rs149948772	chr20:25894057-25894058	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
38	rs187803155	chr20:25894060-25894061	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
39	rs62212265	chr20:25894077-25894078	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
40	rs76401982	chr20:25894081-25894082	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
41	rs62212266	chr20:25894090-25894091	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
42	rs200361042	chr20:25894101-25894102	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
43	rs144556992	chr20:25894108-25894109	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
44	rs144253013	chr20:25894124-25894125	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
45	rs5742281	chr20:25894128-25894129	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
46	rs200434419	chr20:25894136-25894137	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
47	rs149198791	chr20:25894145-25894146	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
48	rs11699057	chr20:25894154-25894155	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
49	rs530329935	chr20:25894185-25894186	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
50	rs540429169	chr20:25894189-25894190	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a

Variant related diseases (count:46)

Disease	PMID	Source
Cancer	21637783	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Ewing''s sarcoma	21437220	CNVD
Oral cancer	19627613	CNVD
colon cancer	17210682	CNVD
Endometrial cancer	22040021	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	21080181	CNVD
Thyroid cancer	19087340	CNVD
Acute lymphoblastic leukemia	20067559	CNVD
Cancer	16751803	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Colorectal cancer	19359472	CNVD
Esophageal squamous carcinoma	18350619	CNVD
Human rectal carcinomas	16397240	CNVD
Olfactory neuroblastoma	18408657	CNVD
Central neurocytomas	17123091	CNVD
Colorectal cancer	16272173	CNVD
Medulloblastoma	21979893	CNVD
Gastric cancer	17908304	CNVD
Urothelial carcinoma	21177765	CNVD
Acute myeloid leukemia	20729466	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Ewing''s sarcoma	17952124	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Colorectal cancer	21645411	CNVD
Lung cancer	18438408	CNVD
Autism	22495311	CNVD
Anaplastic large cell lymphoma	18179710	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Cancer	21183584	CNVD
Myxofibrosarcoma	16751306	CNVD
Pancreatic endocrine tumor	17639061	CNVD
Bladder cancer	21909424	CNVD
Esophageal cancer	21851588	CNVD
Chordoma	18071362	CNVD
Basal cell lymphoma	16317097	CNVD
Diffuse large b-cell lymphoma	16317097	CNVD
Breast cancer	21364760	CNVD
small cell lung cancer	20016488	CNVD
Colorectal cancer	16774939	CNVD
Non-syndromic sensorineural hearing loss	17122850	CNVD
Non-syndromic sensorineural hearing loss	21293372	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:25909800-25911000	Enhancers	Dnd41	blood
2	chr20:25912600-25913200	Enhancers	Osteobl	bone
3	chr20:25912600-25913800	Enhancers	NHEK	skin
4	chr20:25912800-25913400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr20:25913000-25913800	Enhancers	HMEC	breast
6	chr20:25913600-25914000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr20:25913600-25914000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr20:25934800-25935200	Enhancers	Fetal Intestine Large	intestine
9	chr20:25934800-25935200	Enhancers	Fetal Intestine Small	intestine
10	chr20:25945800-25946200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr20:25946000-25946400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links