Variant report

Variant	esv3455594
Chromosome Location	chr22:20337502-20340800
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	chr22:20337378-20337650	GM12878	blood:	n/a	n/a
2	BATF	chr22:20338718-20339171	GM12878	blood:	n/a	chr22:20338830-20338841 chr22:20338831-20338841
3	BATF	chr22:20340730-20340943	GM12878	blood:	n/a	n/a
4	BATF	chr22:20338681-20338942	GM12878	blood:	n/a	chr22:20338830-20338841 chr22:20338831-20338841
5	BATF	chr22:20339791-20339999	GM12878	blood:	n/a	n/a
6	BATF	chr22:20338058-20338380	GM12878	blood:	n/a	n/a
7	BCL11A	chr22:20338589-20338836	GM12878	blood:	n/a	n/a
8	BCL11A	chr22:20339504-20339680	GM12878	blood:	n/a	n/a
9	BCL11A	chr22:20340608-20341203	GM12878	blood:	n/a	n/a
10	BCL11A	chr22:20339772-20340009	GM12878	blood:	n/a	n/a
11	BHLHE40	chr22:20338148-20338362	HepG2	liver:	n/a	n/a
12	EBF1	chr22:20339387-20340034	GM12878	blood:	n/a	n/a
13	EBF1	chr22:20339518-20340028	GM12878	blood:	n/a	n/a
14	EBF1	chr22:20338053-20338391	GM12878	blood:	n/a	n/a
15	EBF1	chr22:20337111-20337624	GM12878	blood:	n/a	n/a
16	EP300	chr22:20337546-20337978	GM12878	blood:	n/a	n/a
17	EP300	chr22:20338045-20338465	GM12878	blood:	n/a	n/a
18	EP300	chr22:20338550-20339231	GM12878	blood:	n/a	n/a
19	EP300	chr22:20339238-20340090	GM12878	blood:	n/a	n/a
20	EP300	chr22:20340628-20341459	GM12878	blood:	n/a	n/a
21	EP300	chr22:20337405-20337540	GM12878	blood:	n/a	n/a
22	EP300	chr22:20338111-20338274	GM12878	blood:	n/a	n/a
23	FOSL2	chr22:20337398-20337876	HepG2	liver:	n/a	n/a
24	FOSL2	chr22:20338644-20339180	HepG2	liver:	n/a	chr22:20338829-20338839 chr22:20338829-20338840 chr22:20338829-20338839 chr22:20338828-20338840 chr22:20338830-20338838
25	FOSL2	chr22:20339773-20340354	HepG2	liver:	n/a	n/a
26	FOSL2	chr22:20340495-20341260	HepG2	liver:	n/a	n/a
27	FOSL2	chr22:20338071-20338465	HepG2	liver:	n/a	n/a
28	FOSL2	chr22:20338558-20339154	HepG2	liver:	n/a	chr22:20338829-20338839 chr22:20338829-20338840 chr22:20338829-20338839 chr22:20338828-20338840 chr22:20338830-20338838
29	FOSL2	chr22:20338079-20338428	HepG2	liver:	n/a	n/a
30	FOSL2	chr22:20340521-20341548	HepG2	liver:	n/a	n/a
31	FOSL2	chr22:20339679-20340431	HepG2	liver:	n/a	n/a
32	FOXA1	chr22:20338788-20339461	HepG2	liver:	n/a	n/a
33	FOXA1	chr22:20338082-20338389	HepG2	liver:	n/a	n/a
34	GABPA	chr22:20338805-20339099	Hela-S3	cervix:	n/a	n/a
35	GABPA	chr22:20339791-20339927	Hela-S3	cervix:	n/a	n/a
36	GATA2	chr22:20338480-20340038	K562	blood:	n/a	chr22:20338831-20338840 chr22:20338828-20338837
37	GATA2	chr22:20337137-20337968	K562	blood:	n/a	n/a
38	GATA2	chr22:20340512-20341110	K562	blood:	n/a	n/a
39	GATA2	chr22:20338028-20338390	K562	blood:	n/a	n/a
40	HEY1	chr22:20338100-20338375	HepG2	liver:	n/a	n/a
41	HEY1	chr22:20338065-20338416	K562	blood:	n/a	n/a
42	HEY1	chr22:20339461-20340008	K562	blood:	n/a	n/a
43	HEY1	chr22:20338669-20339256	K562	blood:	n/a	n/a
44	IRF4	chr22:20338958-20339485	GM12878	blood:	n/a	n/a
45	IRF4	chr22:20338104-20338525	GM12878	blood:	n/a	n/a
46	IRF4	chr22:20339663-20340107	GM12878	blood:	n/a	n/a
47	IRF4	chr22:20338040-20338372	GM12878	blood:	n/a	n/a
48	IRF4	chr22:20339686-20340238	GM12878	blood:	n/a	n/a
49	IRF4	chr22:20338716-20339234	GM12878	blood:	n/a	n/a
50	IRF4	chr22:20337340-20337680	GM12878	blood:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AC007663.1-2	chr22:20339072-20339133	ENSG00000188424.4
2	lnc-AC007663.1-2	chr22:20339599-20339632	ENSG00000188424.4
3	lnc-GGTLC3-1	chr22:20337736-20338450	ENSG00000230410
4	lnc-GGTLC3-1	chr22:20338334-20338449	ENSG00000230410

Variant related genes	Relation type
ENSG00000230410	TF binding region

Extended variants
information (count: 51 )
Associated
traits (count: 231 )

Variant overlapped rSNPs/rCNVs (count:51 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	rs113277938	chr22:20338281-20338282	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
2	rs564380089	chr22:20338331-20338332	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
3	rs111428138	chr22:20338347-20338348	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
4	rs533124955	chr22:20338364-20338365	Inactive region	lncRNA	n/a	Overlapped CNVs	n/a
5	rs201810041	chr22:20338657-20338658	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
6	rs62218057	chr22:20338930-20338931	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
7	rs549731520	chr22:20339046-20339047	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
8	rs199947698	chr22:20339058-20339059	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
9	rs1269923	chr22:20339295-20339296	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
10	rs12163069	chr22:20339310-20339311	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
11	rs563532947	chr22:20339345-20339346	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
12	rs200994186	chr22:20339424-20339425	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
13	rs112289502	chr22:20339472-20339473	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
14	rs201990883	chr22:20339617-20339618	Inactive region	TF binding region lncRNA	1 gene(s)	Overlapped CNVs	n/a
15	rs112158581	chr22:20339624-20339625	Inactive region	TF binding region lncRNA	1 gene(s)	Overlapped CNVs	n/a
16	rs62218058	chr22:20339654-20339655	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
17	rs199747190	chr22:20339657-20339658	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
18	rs62218059	chr22:20340037-20340038	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
19	rs62218560	chr22:20340078-20340079	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
20	rs3962732	chr22:20340085-20340086	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
21	rs62218562	chr22:20340127-20340128	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
22	rs111656375	chr22:20340153-20340154	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
23	rs201161925	chr22:20340184-20340185	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
24	rs374069258	chr22:20340192-20340193	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
25	rs201954174	chr22:20340206-20340207	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
26	rs200056478	chr22:20340230-20340231	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
27	rs371657495	chr22:20340233-20340234	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
28	rs200839390	chr22:20340254-20340255	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
29	rs528971280	chr22:20340271-20340272	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
30	rs9606356	chr22:20340278-20340279	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
31	rs549110633	chr22:20340323-20340324	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
32	rs565290789	chr22:20340329-20340330	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
33	rs534329058	chr22:20340348-20340349	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
34	rs201658210	chr22:20340400-20340401	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
35	rs551625144	chr22:20340407-20340408	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
36	rs200211007	chr22:20340412-20340413	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
37	rs375955487	chr22:20340413-20340414	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
38	rs199985620	chr22:20340415-20340416	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
39	rs200228110	chr22:20340417-20340418	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
40	rs62218563	chr22:20340442-20340443	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
41	rs201015507	chr22:20340447-20340448	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
42	rs368987015	chr22:20340459-20340460	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
43	rs144449039	chr22:20340487-20340488	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
44	rs62218564	chr22:20340498-20340499	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
45	rs62218565	chr22:20340509-20340510	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
46	rs201080987	chr22:20340536-20340537	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
47	rs112111080	chr22:20340554-20340555	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
48	rs571632636	chr22:20340609-20340610	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
49	rs202234933	chr22:20340688-20340689	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a
50	rs199821753	chr22:20340699-20340700	Inactive region	TF binding region	1 gene(s)	Overlapped CNVs	n/a

Variant related diseases (count:231)

Disease	PMID	Source
Hodgkin''s lymphoma	18641027	CNVD
Acute lymphoblastic leukemia	22237106	CNVD
Esophageal squamous carcinoma	21637470	CNVD
Glioblastoma multiforme	21080181	CNVD
Velocardiofacial syndrome	20111667	CNVD
Medulloblastoma	21979893	CNVD
sporadic solitary meningiomas	19589153	CNVD
Myofibroblastic sarcoma	19369631	CNVD
Autism	22102821	CNVD
Autism	22495311	CNVD
Lung cancer	18438408	CNVD
Myelofibrosis	22110671	CNVD
Emanuel syndrome	21549014	CNVD
Digeorge syndrome	22283845	CNVD
Schizophrenia	17504246	CNVD
Digeorge syndrome	18033723	CNVD
22q11 deletion syndrome	17034021	CNVD
22q11 deletion syndrome	22511897	CNVD
22q11 deletion syndrome	16829213	CNVD
Autism	22067053	CNVD
Autism	19218893	CNVD
Biliary cancer	22067053	CNVD
Congenital heart defect	21390462	CNVD
Digeorge syndrome	16617304	CNVD
Emanuel syndrome	18184694	CNVD
Non-syndromic sensorineural hearing loss	18184694	CNVD
Obsessive-compulsive disorder	22067053	CNVD
Psychosis	22067053	CNVD
Schizophrenia	19415332	CNVD
Schizophrenia	20587603	CNVD
Shprintzen syndrome	19443537	CNVD
absent pulmonary valve syndrome	16795129	CNVD
language delay	22067053	CNVD
periventricular nodular heterotopia	20648244	CNVD
renal disease	17924346	CNVD
Schizophrenia	20433910	CNVD
22q11 deletion syndrome	17028864	CNVD
Schizophrenia	16969581	CNVD
Non-syndromic sensorineural hearing loss	17135275	CNVD
velo-cardio-facial syndrome	17135275	CNVD
Digeorge syndrome	18787571	CNVD
Autism	18925931	CNVD
Non-small cell lung cancer	21829676	CNVD
22q11.2 microdeletion syndrome	21547621	CNVD
Congenital heart defect	21308838	CNVD
Digeorge syndrome	16512914	CNVD
Digeorge syndrome	20954168	CNVD
Nuchal translucency	21837766	CNVD
Right aortic arch in the fetus	17066500	CNVD
Shprintzen syndrome	17117043	CNVD
Tetralogy of fallot	17405110	CNVD
Velocardiofacial syndrome	20140301	CNVD
Velocardiofacial syndrome	16512914	CNVD
bone mass and metabolism	20516202	CNVD
choanal atresia	18209138	CNVD
extracardiac malformations	17086578	CNVD
fetal heart defects	21308838	CNVD
parathyroid gland dysfunction	16793949	CNVD
prenatal diagnosis	20453657	CNVD
velopharyngeal insufficiency	19620585	CNVD
Prader-willi syndrome	20942916	CNVD
22q11 deletion syndrome	17653112	CNVD
Chronic myelomonocytic leukemia	16760666	CNVD
Non-syndromic sensorineural hearing loss	16829213	CNVD
Non-syndromic sensorineural hearing loss	16760666	CNVD
Chordoma	21602918	CNVD
Cancer	21637783	CNVD
Non-syndromic sensorineural hearing loss	18471307	CNVD
Splenic marginal zone lymphoma	21957467	CNVD
Congenital heart defect	22511896	CNVD
Breast cancer	17603634	CNVD
Endometrial cancer	22040021	CNVD
Burkitt''s lymphoma	18698080	CNVD
Acute myeloid leukemia	16864856	CNVD
Astrocytoma	17387387	CNVD
Breast cancer	21264507	CNVD
Glioblastoma multiforme	17387387	CNVD
Seminomas	18059402	CNVD
Cancer	16751803	CNVD
Metanephric adenoma	20802469	CNVD
T-cell prolymphocytic leukemia	19278963	CNVD
Chronic lymphocytic leukemia	21546498	CNVD
Acute lymphoblastic leukemia	19100363	CNVD
Colorectal cancer	19359472	CNVD
Metachromatic leukodystrophy	18421352	CNVD
Basal cell lymphoma	17170743	CNVD
Gastrointestinal stromal cancer	19259404	CNVD
Gastrointestinal stromal cancer	20470368	CNVD
Gastrointestinal stromal cancer	17535989	CNVD
Paraganglioma	17535989	CNVD
Pulmonary chondroma	17535989	CNVD
Breast cancer	17142309	CNVD
Acute lymphoblastic leukemia	21248843	CNVD
Breast cancer	21858162	CNVD
small cell lung cancer	20016488	CNVD
Myelodysplastic syndrome	21251322	CNVD
Acute myeloid leukemia	20729466	CNVD
Breast cancer	21509527	CNVD
Hodgkin''s lymphoma	17606441	CNVD
Prostate cancer	18632612	CNVD
Gastric cancer	22591714	CNVD
Autism	22958593	CNVD
Digeorge syndrome	16199537	CNVD
Schizophrenia	22958593	CNVD
Schizophrenia	21285140	CNVD
Schizophrenia	22241247	CNVD
Autism	22241247	CNVD
Ewing''s sarcoma	21437220	CNVD
Glioblastoma multiforme	18628472	CNVD
Glioblastoma multiforme	22286061	CNVD
Ovarian neoplasms	16753589	CNVD
Schizophrenia	21399695	CNVD
22q11.21 microdeletion syndrome	19193630	CNVD
Cat eye syndrome	21549014	CNVD
Digeorge syndrome	21549014	CNVD
22q11.2 microdeletion syndrome	22051516	CNVD
22q11.2 microdeletion syndrome	18483005	CNVD
22q11.2 microdeletion syndrome	19565140	CNVD
22q11.2 microdeletion syndrome	20396437	CNVD
22q11.2 microdeletion syndrome	21390462	CNVD
22q11.2 microdeletion syndrome	21573985	CNVD
Austim spectrum disorder	21302340	CNVD
Autism	20970697	CNVD
Bipolar disorder	19114987	CNVD
Congenital heart defect	21257016	CNVD
Developmental delay	18414209	CNVD
DiGeorge-Velo cardiofacial	19284877	CNVD
Epilepsy	20970697	CNVD
Heart disease	20551144	CNVD
Hughes'' syndrome	16595601	CNVD
Mental retardation	18414209	CNVD
Okamoto syndrome	19046188	CNVD
Primary immunodeficiency	22566803	CNVD
Schizophrenia	20877625	CNVD
Schizophrenia	20553308	CNVD
Schizophrenia	21956041	CNVD
Schizophrenia	20970697	CNVD
Tetralogy of Fallot	22912587	CNVD
Velocardiofacial syndrome	17556857	CNVD
Velocardiofacial syndrome	20206275	CNVD
Velocardiofacial syndrome	20970697	CNVD
delayed speech development	21274400	CNVD
velo-cardio-facial syndrome	16511839	CNVD
velo-cardio-facial syndrome	21763005	CNVD
22q11.2 microdeletion syndrome	18799940	CNVD
Digeorge syndrome	20877625	CNVD
22q11.2 microdeletion syndrome	18923514	CNVD
Congenital heart defect	22185286	CNVD
DiGeorge-Velo cardiofacial	16773131	CNVD
Digeorge syndrome	20186050	CNVD
velo-cardio-facial conotruncal-face syndrome	20186050	CNVD
22q11.2 microdeletion syndrome	22116936	CNVD
Disorders of sex development	22290220	CNVD
22q11.2 duplication syndrome	18923514	CNVD
Autism	22095694	CNVD
Mental retardation	19951919	CNVD
Honadal dysgenesis	21048976	CNVD
Mental retardation	16773131	CNVD
22q11.2 microdeletion syndrome	22395003	CNVD
22q11.2 microdeletion syndrome	18691436	CNVD
22q11.2 microdeletion syndrome	18053182	CNVD
22q11.2 microdeletion syndrome	18324686	CNVD
22q11.2 microdeletion syndrome	20074913	CNVD
Congenital heart defect	20802965	CNVD
Congenital heart defect	21134246	CNVD
DiGeorge syndrome	19040613	CNVD
DiGeorge-Velo cardiofacial	18179902	CNVD
Digeorge syndrome	18172682	CNVD
Digeorge syndrome	22470819	CNVD
Digeorge syndrome	21364285	CNVD
Neuroendocrine carcinoma	22470819	CNVD
Non-syndromic sensorineural hearing loss	20069674	CNVD
Smith-Magenis syndrome	18301319	CNVD
Tetralogy of fallot	19144126	CNVD
Velo-cardio-facial syndrome	21364285	CNVD
Velocardiofacial syndrome	18788013	CNVD
cardiac malformation	20573211	CNVD
cardiac malformation	18172682	CNVD
velo-cardio-facial syndrome	18636631	CNVD
Schizophrenia	21822266	CNVD
synaptic plasticity	21368174	CNVD
Schizophrenia	18043741	CNVD
sporadic birth defects	19047251	CNVD
Autism	19046189	CNVD
DiGeorge-Velo cardiofacial	19047251	CNVD
Hypernasal speech	21968682	CNVD
Mental retardation	17339581	CNVD
diverse phenotype	16760730	CNVD
Mental retardation	20152051	CNVD
Breast cancer	16608533	CNVD
Melanoma	18172304	CNVD
Ovarian cancer	22174824	CNVD
T-cell prolymphocytic leukemia	17713554	CNVD
Wilms tumour	21544195	CNVD
Acute myeloid leukemia	21251322	CNVD
Acute lymphoblastic leukemia	20435627	CNVD
Autism	19521722	CNVD
Digeorge syndrome	19521722	CNVD
Autism	19955444	CNVD
Schizophrenia	19955444	CNVD
Mental retardation	17124404	CNVD
Tourette syndrome	20069037	CNVD
Williams-beuren syndrome	18553513	CNVD
Emphysema	19352772	CNVD
Schizophrenia	17160897	CNVD
Cancer	17160897	CNVD
Neuropsychiatric disorder	20069037	CNVD
DiGeorge-Velo cardiofacial	17597781	CNVD
Digeorge syndrome	17576883	CNVD
Schizophrenia	18806272	CNVD
Schizophrenia	18990708	CNVD
Velocardiofacial syndrome	17576883	CNVD
Schizophrenia	20075378	CNVD
Neurodevelopmental disorder	17015230	CNVD
Cancer	17440070	CNVD
Endometrioid adenocarcinoma	16974079	CNVD
Esophageal cancer	21851588	CNVD
22q11.2 deletion syndrome	22563040	CNVD
cardiac septal defect	19239688	CNVD
Disease	21346257	CNVD
Breast cancer	20668451	CNVD
Cancer	20668451	CNVD
Lung cancer	20668451	CNVD
Ovarian cancer	20668451	CNVD
Pancreas cancer	20668451	CNVD
Prostate cancer	20668451	CNVD
Urothelial carcinoma	21177765	CNVD
Developmental delay	21147756	CNVD
Non-syndromic sensorineural hearing loss	21293372	CNVD
Acute myeloid leukemia	20962326	CNVD
Breast cancer	22522925	CNVD

Chromatin state (count:0 , 50 per page) page:

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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