Variant report

Variant	esv2755523
Chromosome Location	chr12:40804386-40821478
allele	n/a
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:18)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:18)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:18 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr12:40818598-40818846	IMR90	lung:	n/a	chr12:40818717-40818728
2	CEBPB	chr12:40818440-40818848	A549	lung:	n/a	chr12:40818529-40818540 chr12:40818717-40818728
3	CEBPB	chr12:40818440-40818807	HepG2	liver:	n/a	chr12:40818529-40818540 chr12:40818717-40818728
4	CTCF	chr12:40805024-40805091	LNCaP	prostate:	n/a	n/a
5	E2F4	chr12:40818494-40818875	MCF10A-Er-Src	breast:	n/a	n/a
6	E2F4	chr12:40815772-40816219	MCF10A-Er-Src	breast:	n/a	n/a
7	GATA3	chr12:40810161-40810625	MCF-7	breast:	n/a	n/a
8	MAFK	chr12:40811655-40811801	HepG2	liver:	n/a	n/a
9	MYC	chr12:40821207-40821299	K562	blood:	n/a	n/a
10	MYC	chr12:40821112-40821194	Hela-S3	cervix:	n/a	n/a
11	POLR2A	chr12:40818255-40818307	GM12878	blood:	n/a	n/a
12	POLR2A	chr12:40818471-40818628	MCF10A-Er-Src	breast:	n/a	n/a
13	POLR2A	chr12:40806369-40806465	MCF10A-Er-Src	breast:	n/a	n/a
14	STAT3	chr12:40809708-40809713	MCF10A-Er-Src	breast:	n/a	n/a
15	STAT3	chr12:40806038-40806113	MCF10A-Er-Src	breast:	n/a	n/a
16	STAT3	chr12:40808552-40808706	MCF10A-Er-Src	breast:	n/a	n/a
17	STAT3	chr12:40813810-40814010	MCF10A-Er-Src	breast:	n/a	n/a
18	USF2	chr12:40808250-40808281	H1-hESC	embryonic stem cell:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	12:40793507-40812339..12:40836437-40839614	H1-hESC	embryonic stem cell:	embryo
2	chr12:40802843..40805068-chr12:40806902..40808859,2	K562	blood:
3	chr12:40803393..40806032-chr12:40844478..40846629,2	K562	blood:
4	chr12:40802843..40805068-chr12:40806902..40808859,2	K562	blood:

(count:18 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC2A13-3	chr12:40810105-40810240	XLOC_010054
2	lnc-MUC19-1	chr12:40820209-40820419	NONHSAT027728
3	lnc-SLC2A13-3	chr12:40814022-40814118	XLOC_010054
4	lnc-SLC2A13-3	chr12:40807837-40807921	XLOC_010054
5	lnc-MUC19-1	chr12:40814009-40814237	NONHSAT027728
6	lnc-MUC19-1	chr12:40805835-40805984	NONHSAT027728
7	lnc-MUC19-1	chr12:40821176-40821298	NONHSAT027728
8	lnc-SLC2A13-3	chr12:40810105-40810240	XLOC_010054
9	lnc-MUC19-1	chr12:40811932-40811982	NONHSAT027728
10	lnc-MUC19-1	chr12:40815015-40815125	NONHSAT027728
11	lnc-MUC19-1	chr12:40815642-40815702	NONHSAT027728
12	lnc-SLC2A13-3	chr12:40814022-40814118	XLOC_010054
13	lnc-MUC19-1	chr12:40812976-40813035	NONHSAT027728
14	lnc-SLC2A13-3	chr12:40814022-40814113	ENSG00000258167.1
15	lnc-MUC19-1	chr12:40815906-40816003	NONHSAT027728
16	lnc-SLC2A13-3	chr12:40810103-40810240	XLOC_010054
17	lnc-MUC19-1	chr12:40805409-40805429	NONHSAT027728
18	lnc-SLC2A13-3	chr12:40814022-40814113	XLOC_010054

No data

Variant related genes	Relation type
MUC19	TF binding region
ENSG00000258167	chromatin interactions
BLOC1S3	miRNA target sites
STXBP3	miRNA target sites
SEC23IP	miRNA target sites
MORF4L1	miRNA target sites

Extended variants
information (count: 484 )
Associated
traits (count: 57 )

Variant overlapped rSNPs/rCNVs (count:484 , 50 per page) page: 1 2 3 4 5 6 7 ... 10

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs6581723	chr12:40804386-40804387	Weak transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
2	rs575114323	chr12:40804473-40804474	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
3	rs142342170	chr12:40804486-40804487	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
4	rs146427470	chr12:40804495-40804496	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
5	rs527898556	chr12:40804514-40804515	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
6	rs190041540	chr12:40804527-40804528	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
7	rs17467081	chr12:40804533-40804534	Weak transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
8	rs180795905	chr12:40804544-40804545	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
9	rs550593044	chr12:40804549-40804550	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
10	rs148320101	chr12:40804569-40804570	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
11	rs529954929	chr12:40804570-40804571	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
12	rs186229803	chr12:40804583-40804584	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
13	rs56856082	chr12:40804635-40804636	Weak transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
14	rs547823854	chr12:40804649-40804650	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
15	rs565948301	chr12:40804651-40804652	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
16	rs191855051	chr12:40804698-40804699	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
17	rs17467088	chr12:40804713-40804714	Weak transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
18	rs559073111	chr12:40804723-40804724	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
19	rs548287057	chr12:40804748-40804749	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
20	rs140505143	chr12:40804750-40804751	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
21	rs150447885	chr12:40804752-40804753	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
22	rs138273035	chr12:40804773-40804774	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
23	rs370062964	chr12:40804774-40804775	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
24	rs538118892	chr12:40804802-40804803	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
25	rs114665750	chr12:40804830-40804831	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
26	rs542478306	chr12:40804921-40804922	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
27	rs556405980	chr12:40805022-40805023	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
28	rs374392743	chr12:40805027-40805028	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
29	rs554080013	chr12:40805067-40805068	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
30	rs572285991	chr12:40805093-40805094	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
31	rs577882134	chr12:40805101-40805102	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
32	rs369561053	chr12:40805106-40805107	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
33	rs74470463	chr12:40805127-40805128	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
34	rs78473119	chr12:40805132-40805133	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
35	rs74879476	chr12:40805133-40805134	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
36	rs183363271	chr12:40805134-40805135	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
37	rs11564255	chr12:40805147-40805148	Weak transcription	Chromatin interactive region	1 gene(s)	LD-proxies of rSNP Overlapped rCNV	n/a
38	rs550387154	chr12:40805154-40805155	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
39	rs376500421	chr12:40805168-40805169	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
40	rs78703257	chr12:40805209-40805210	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
41	rs529673123	chr12:40805252-40805253	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
42	rs572044719	chr12:40805255-40805256	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
43	rs185688267	chr12:40805269-40805270	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
44	rs190539295	chr12:40805275-40805276	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
45	rs527479265	chr12:40805276-40805277	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
46	rs367968072	chr12:40805286-40805287	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
47	rs542638214	chr12:40805301-40805302	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
48	rs117867889	chr12:40805329-40805330	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a
49	rs183029777	chr12:40805425-40805426	Weak transcription	Chromatin interactive region lncRNA	1 gene(s)	Overlapped CNVs	n/a
50	rs568614218	chr12:40805452-40805453	Weak transcription	Chromatin interactive region	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:57)

Disease	PMID	Source
Chronic lymphocytic leukemia	21546498	CNVD
Seminomas	18059402	CNVD
Wilms tumour	21544195	CNVD
Esophageal cancer	21851588	CNVD
Lung cancer	20668451	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Ewing''s sarcoma	21437220	CNVD
Testicular germ cell tumor	18059402	CNVD
Medulloblastoma	21979893	CNVD
Malaria	21533027	CNVD
Chronic lymphocytic leukemia	22228453	CNVD
Basal cell lymphoma	17053054	CNVD
Chronic lymphocytic leukemia	21670202	CNVD
Ewing''s sarcoma	17952124	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Thoracic aortic aneurysm	21092924	CNVD
Autism	22495311	CNVD
Cancer	20164919	CNVD
Neurodevelopmental disorder	22521361	CNVD
Acute lymphoblastic leukemia	21390130	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Renal cell carcinoma	18194544	CNVD
Breast cancer	21949216	CNVD
Carcinoma ex pleomorphic adenoma	18828159	CNVD
Acute myeloid leukemia	16864856	CNVD
Cancer	21637783	CNVD
Glioblastoma multiforme	21080181	CNVD
Renal cell carcinoma	19461508	CNVD
Burkitt''s lymphoma	18698080	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	19960244	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Adenoid cystic carcinoma	17372589	CNVD
Myelofibrosis	22110671	CNVD
Breast cancer	17603634	CNVD
Cancer	21183584	CNVD
Hirschsprung''s Disease	21712996	CNVD
Lissencephaly	21572526	CNVD
Lung cancer	18438408	CNVD
Acute myeloid leukemia	21251322	CNVD
small cell lung cancer	20016488	CNVD
Autism	20858243	CNVD
Malignant peripheral nerve sheath tumor	18522746	CNVD
Adenoid cystic carcinoma	18698036	CNVD
Breast cancer	19602461	CNVD
Breast cancer	17899364	CNVD
Cancer	20164920	CNVD
Colorectal cancer	16272173	CNVD
Breast cancer	21364760	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40799600-40813200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr12:40803400-40805600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr12:40805600-40806200	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr12:40806200-40807600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr12:40807800-40808000	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr12:40813200-40813400	ZNF genes & repeats	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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