Variant report

Variant	nsv589931
Chromosome Location	chr3:21976413-21985417
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	CEBPB	chr3:21983754-21984218	IMR90	lung:	n/a	chr3:21984197-21984210
2	CTCF	chr3:21980128-21980180	MCF-7	breast:	n/a	n/a
3	E2F4	chr3:21983881-21984127	MCF10A-Er-Src	breast:	n/a	n/a
4	EP300	chr3:21983614-21984173	SK-N-SH	brain:	n/a	chr3:21983882-21983889 chr3:21983861-21983870
5	EP300	chr3:21983617-21984398	SK-N-SH	brain:	n/a	chr3:21983882-21983889 chr3:21983861-21983870
6	EP300	chr3:21983774-21984300	SK-N-SH_RA	brain:	n/a	chr3:21983882-21983889 chr3:21983861-21983870
7	EP300	chr3:21983838-21984230	SK-N-SH_RA	brain:	n/a	chr3:21983882-21983889 chr3:21983861-21983870
8	ESR1	chr3:21978643-21978921	ECC-1	luminal epithelium:	n/a	n/a
9	ESR1	chr3:21979690-21979940	ECC-1	luminal epithelium:	n/a	chr3:21979806-21979823
10	FOS	chr3:21983706-21984092	MCF10A-Er-Src	breast:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983863-21983870
11	FOS	chr3:21983679-21984147	MCF10A-Er-Src	breast:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983863-21983870
12	FOS	chr3:21983687-21984101	MCF10A-Er-Src	breast:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983863-21983870
13	FOS	chr3:21983686-21984346	MCF10A-Er-Src	breast:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983863-21983870
14	FOSL2	chr3:21983666-21984256	SK-N-SH	brain:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983863-21983870
15	GATA3	chr3:21983576-21984442	SK-N-SH	brain:	n/a	n/a
16	GATA3	chr3:21983637-21984346	SK-N-SH	brain:	n/a	n/a
17	JUN	chr3:21977486-21977516	H1-hESC	embryonic stem cell:	n/a	n/a
18	JUND	chr3:21983694-21984337	SK-N-SH	brain:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983860-21983871 chr3:21983863-21983870
19	JUND	chr3:21983716-21984263	SK-N-SH	brain:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983860-21983871 chr3:21983863-21983870
20	JUND	chr3:21983737-21984331	SK-N-SH	brain:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983860-21983871 chr3:21983863-21983870
21	JUND	chr3:21983745-21984022	HepG2	liver:	n/a	chr3:21983861-21983871 chr3:21983860-21983872 chr3:21983861-21983870 chr3:21983862-21983871 chr3:21983861-21983871 chr3:21983860-21983871 chr3:21983863-21983870
22	MAFF	chr3:21977735-21978044	HepG2	liver:	n/a	chr3:21977897-21977915
23	MAFK	chr3:21977705-21977972	H1-hESC	embryonic stem cell:	n/a	chr3:21977901-21977915 chr3:21977898-21977913 chr3:21977894-21977911 chr3:21977898-21977914
24	MAFK	chr3:21977720-21978059	IMR90	lung:	n/a	chr3:21977901-21977915 chr3:21977898-21977913 chr3:21977894-21977911 chr3:21977898-21977914
25	MAFK	chr3:21977729-21978067	HepG2	liver:	n/a	chr3:21977901-21977915 chr3:21977898-21977913 chr3:21977894-21977911 chr3:21977898-21977914
26	MAFK	chr3:21978730-21978939	HepG2	liver:	n/a	n/a
27	MAFK	chr3:21978731-21978858	HepG2	liver:	n/a	n/a
28	MAFK	chr3:21977733-21978031	HepG2	liver:	n/a	chr3:21977901-21977915 chr3:21977898-21977913 chr3:21977894-21977911 chr3:21977898-21977914
29	MYC	chr3:21983527-21984403	MCF10A-Er-Src	breast:	n/a	chr3:21983960-21983970 chr3:21983960-21983969
30	MYC	chr3:21980156-21980179	H1-hESC	embryonic stem cell:	n/a	n/a
31	MYC	chr3:21983781-21984466	MCF10A-Er-Src	breast:	n/a	chr3:21983960-21983970 chr3:21983960-21983969
32	NFIC	chr3:21983623-21984335	SK-N-SH	brain:	n/a	n/a
33	NFYB	chr3:21979879-21980073	GM12878	blood:	n/a	n/a
34	NFYB	chr3:21976903-21977065	GM12878	blood:	n/a	n/a
35	PBX3	chr3:21983745-21984452	SK-N-SH	brain:	n/a	n/a
36	PBX3	chr3:21983776-21984307	SK-N-SH	brain:	n/a	n/a
37	POLR2A	chr3:21980244-21980256	MCF10A-Er-Src	breast:	n/a	n/a
38	POLR2A	chr3:21976451-21976463	MCF10A-Er-Src	breast:	n/a	n/a
39	POLR2A	chr3:21983724-21984243	U87	brain:	n/a	n/a
40	POLR2A	chr3:21983616-21984236	U87	brain:	n/a	n/a
41	POLR2A	chr3:21983853-21984075	MCF10A-Er-Src	breast:	n/a	n/a
42	POLR2A	chr3:21977782-21977982	MCF10A-Er-Src	breast:	n/a	n/a
43	POLR2A	chr3:21983820-21984450	H1-neurons	neurons:	n/a	n/a
44	POLR2A	chr3:21980677-21980835	MCF10A-Er-Src	breast:	n/a	n/a
45	POLR2A	chr3:21984403-21984523	MCF10A-Er-Src	breast:	n/a	n/a
46	POLR2A	chr3:21983622-21984230	U87	brain:	n/a	n/a
47	POLR2A	chr3:21983795-21984428	H1-neurons	neurons:	n/a	n/a
48	POLR2A	chr3:21983695-21984243	U87	brain:	n/a	n/a
49	STAT3	chr3:21983779-21984046	MCF10A-Er-Src	breast:	n/a	chr3:21983862-21983871
50	STAT3	chr3:21983795-21984106	MCF10A-Er-Src	breast:	n/a	chr3:21983862-21983871

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-UBE2E2-7	chr3:21982020-21982219	l_2330_chr3:21975326-21982219_testes
2	lnc-UBE2E2-2	chr3:21984058-21984156	ENSG00000223351

Variant related genes	Relation type
ZNF385D-AS2	TF binding region

Extended variants
information (count: 514 )
Associated
traits (count: 72 )

Variant overlapped rSNPs/rCNVs (count:514 , 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	rs1553084	chr3:21976413-21976414	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs149276187	chr3:21976443-21976444	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
3	rs576892842	chr3:21976491-21976492	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
4	rs77125120	chr3:21976494-21976495	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
5	rs118076849	chr3:21976502-21976503	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
6	rs78379572	chr3:21976509-21976510	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
7	rs542550495	chr3:21976529-21976530	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
8	rs34245371	chr3:21976544-21976545	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
9	rs561115942	chr3:21976567-21976568	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
10	rs575476073	chr3:21976584-21976585	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
11	rs548958927	chr3:21976641-21976642	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
12	rs370096291	chr3:21976661-21976662	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
13	rs576284402	chr3:21976674-21976675	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
14	rs543574595	chr3:21976736-21976737	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
15	rs564985876	chr3:21976741-21976742	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
16	rs148456808	chr3:21976745-21976746	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
17	rs377203685	chr3:21976748-21976749	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
18	rs547371493	chr3:21976763-21976764	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
19	rs145275915	chr3:21976769-21976770	Weak transcription Enhancers	n/a	n/a	Overlapped CNVs	n/a
20	rs34708854	chr3:21976786-21976787	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
21	rs7625879	chr3:21976794-21976795	Weak transcription Enhancers	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
22	rs79297308	chr3:21976824-21976825	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
23	rs76212977	chr3:21976831-21976832	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
24	rs552326839	chr3:21976834-21976835	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
25	rs79786721	chr3:21976842-21976843	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
26	rs534770198	chr3:21976924-21976925	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
27	rs553374237	chr3:21976928-21976929	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
28	rs554858205	chr3:21976942-21976943	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
29	rs536580001	chr3:21976946-21976947	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
30	rs554886531	chr3:21976951-21976952	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
31	rs576367276	chr3:21976956-21976957	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
32	rs568636822	chr3:21976973-21976974	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
33	rs574896118	chr3:21976994-21976995	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
34	rs147229948	chr3:21977004-21977005	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
35	rs576880519	chr3:21977053-21977054	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
36	rs140711166	chr3:21977058-21977059	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
37	rs559347485	chr3:21977077-21977078	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
38	rs573351414	chr3:21977119-21977120	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
39	rs541391940	chr3:21977127-21977128	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
40	rs75726447	chr3:21977130-21977131	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
41	rs531063987	chr3:21977198-21977199	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
42	rs10643046	chr3:21977239-21977240	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
43	rs35324051	chr3:21977240-21977241	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
44	rs397742135	chr3:21977243-21977244	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
45	rs76698975	chr3:21977297-21977298	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
46	rs7628630	chr3:21977337-21977338	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a
47	rs528635361	chr3:21977340-21977341	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
48	rs144646425	chr3:21977439-21977440	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
49	rs568479360	chr3:21977466-21977467	Weak transcription	n/a	n/a	Overlapped CNVs	n/a
50	rs7651606	chr3:21977471-21977472	Weak transcription	n/a	n/a	LD-proxies of rSNP Overlapped rCNV	n/a

Variant related diseases (count:72)

Disease	PMID	Source
Medulloblastoma	21979893	CNVD
Esophageal squamous carcinoma	18405350	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Breast cancer	17603634	CNVD
Neuroblastoma	17327916	CNVD
Glioblastoma multiforme	21080181	CNVD
Neuroblastoma	18923191	CNVD
Colorectal cancer	21297112	CNVD
Lynch syndrome	18415027	CNVD
Renal cell carcinoma	18592004	CNVD
Acute myeloid leukemia	20729466	CNVD
Urothelial carcinoma	18382360	CNVD
Melanoma	18172304	CNVD
Cervical cancer	21062161	CNVD
Hirschsprung''s Disease	21712996	CNVD
head and neck squamous cell carcinoma	17671120	CNVD
Insulin resistance	16721378	CNVD
Neuroblastoma	18664255	CNVD
Monoclonal gammopathy of undetermined significance	17077331	CNVD
Multiple myeloma	17077331	CNVD
Oral squamous cell carcinoma	17134496	CNVD
Ewing''s sarcoma	21437220	CNVD
Neuroblastoma	21484798	CNVD
Non-small cell lung cancer	21044232	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Oral cancer	19627613	CNVD
Renal cell carcinoma	19461508	CNVD
Epithelial cancer	22065749	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
Acute myeloid leukemia	16864856	CNVD
Liposarcoma	21253554	CNVD
Basal cell lymphoma	21115979	CNVD
Endometrial cancer	22040021	CNVD
Pancreatic endocrine tumor	20981439	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	17387387	CNVD
Oral cancer	21386901	CNVD
Cutaneous squamous cell carcinomas	19131950	CNVD
Basal cell lymphoma	17053054	CNVD
Esophageal cancer	21851588	CNVD
Uveal melanoma	21693616	CNVD
Retinoblastoma	21504564	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
lymphocytic leukemia	21291569	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Renal cell carcinoma	21668985	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Lung cancer	20668451	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
small cell lung cancer	20016488	CNVD
Lung cancer	18438408	CNVD
Intellectual disability	22102821	CNVD
Esophageal cancer	20955586	CNVD
Myeloproliferative neoplasm	20015882	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Myofibroblastic sarcoma	19369631	CNVD
Myelofibrosis	22110671	CNVD
Gastric adenocarcinoma	19115996	CNVD
Squamous cell cancer	20885788	CNVD
Esophageal squamous carcinoma	17470683	CNVD
Breast cancer	17133270	CNVD
Uveal melanoma	20484589	CNVD
Autism	22495311	CNVD
Cancer	20164919	CNVD
Melanoma	20688739	CNVD

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:21971800-21983800	Weak transcription	Fetal Heart	heart
2	chr3:21975600-21976800	Enhancers	Pancreatic Islets	Pancreatic Islet
3	chr3:21976400-21981800	Weak transcription	Fetal Lung	lung
4	chr3:21979800-21980200	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr3:21979800-21980200	Enhancers	HSMM	muscle
6	chr3:21980600-21982600	Enhancers	Fetal Stomach	stomach
7	chr3:21981800-21982000	Enhancers	Fetal Lung	lung
8	chr3:21982000-21987200	Weak transcription	Fetal Lung	lung
9	chr3:21982600-21983800	Weak transcription	Fetal Stomach	stomach
10	chr3:21983800-21984400	Enhancers	Fetal Stomach	stomach
11	chr3:21983800-21984600	Enhancers	Fetal Heart	heart
12	chr3:21983800-21984800	Enhancers	NHLF	lung
13	chr3:21984000-21984200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:21984000-21984200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:21984000-21984200	Enhancers	NH-A	brain
16	chr3:21984000-21984600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:21984000-21984600	Enhancers	Muscle Satellite Cultured Cells	--
18	chr3:21984000-21984600	Enhancers	NHDF-Ad	bronchial
19	chr3:21984200-21985200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr3:21984200-21985400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr3:21984400-21985200	Weak transcription	Fetal Stomach	stomach
22	chr3:21984600-21985600	Weak transcription	NHDF-Ad	bronchial
23	chr3:21984600-21985800	Weak transcription	Fetal Heart	heart
24	chr3:21984600-21985800	Enhancers	Pancreatic Islets	Pancreatic Islet
25	chr3:21984600-21986000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr3:21984600-21996000	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr3:21984800-21988400	Weak transcription	NHLF	lung
28	chr3:21985200-21986000	Active TSS	Fetal Stomach	stomach
29	chr3:21985200-21987400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr3:21985400-21985600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:21985400-21985800	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr3:21985400-21986200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links