Variant report
Variant | nsv585762 |
---|---|
Chromosome Location | chr20:25904616-25952310 |
allele | n/a |
Outlinks | Ensembl   UCSC |
- TF binding region (count:58)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:12)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
---|---|---|---|---|---|---|
1 | BATF | chr20:25914607-25914931 | GM12878 | blood: | n/a | n/a |
2 | BATF | chr20:25914679-25914959 | GM12878 | blood: | n/a | n/a |
3 | BCL3 | chr20:25945773-25946163 | GM12878 | blood: | n/a | n/a |
4 | CEBPB | chr20:25942443-25942488 | A549 | lung: | n/a | chr20:25942454-25942467 chr20:25942454-25942465 |
5 | CEBPB | chr20:25942378-25942614 | HepG2 | liver: | n/a | chr20:25942454-25942467 chr20:25942454-25942465 |
6 | CEBPB | chr20:25933076-25933229 | HepG2 | liver: | n/a | chr20:25933144-25933155 |
7 | CEBPB | chr20:25906579-25906779 | K562 | blood: | n/a | n/a |
8 | CTCF | chr20:25905400-25905550 | HFF | foreskin: | n/a | n/a |
9 | CTCF | chr20:25944564-25944572 | GM13977 | blood: | n/a | n/a |
10 | CTCF | chr20:25944435-25944503 | Kidney_OC | kidney: | n/a | n/a |
11 | CTCF | chr20:25931899-25931915 | LNCaP | prostate: | n/a | n/a |
12 | CTCF | chr20:25944510-25944532 | Kidney_OC | kidney: | n/a | n/a |
13 | CTCF | chr20:25917798-25917843 | Lung_OC | lung: | n/a | n/a |
14 | EBF1 | chr20:25951252-25951534 | GM12878 | blood: | n/a | n/a |
15 | FOS | chr20:25912856-25913104 | MCF10A-Er-Src | breast: | n/a | n/a |
16 | FOS | chr20:25912827-25913157 | 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 | chr20:25934647-25934893 | T-47D | breast: | n/a | n/a |
20 | GATA2 | chr20:25942974-25943298 | K562 | blood: | n/a | n/a |
21 | GATA2 | chr20:25911148-25911497 | K562 | blood: | n/a | n/a |
22 | GATA2 | chr20:25943882-25944206 | K562 | blood: | n/a | chr20:25943937-25943958 |
23 | GATA3 | chr20:25934470-25934880 | MCF-7 | breast: | n/a | chr20:25934582-25934595 |
24 | GATA3 | chr20:25910449-25910615 | SH-SY5Y | brain: | n/a | n/a |
25 | GATA3 | chr20:25934440-25934913 | MCF-7 | breast: | n/a | chr20:25934582-25934595 |
26 | GATA3 | chr20:25934512-25934894 | T-47D | breast: | n/a | chr20:25934582-25934595 |
27 | GATA3 | chr20:25934413-25935005 | T-47D | breast: | n/a | chr20:25934582-25934595 |
28 | GATA3 | chr20:25934515-25934795 | MCF-7 | breast: | n/a | chr20:25934582-25934595 |
29 | MAFF | chr20:25937839-25937995 | HepG2 | liver: | n/a | chr20:25937926-25937944 chr20:25937932-25937946 |
30 | MAFK | chr20:25937893-25937986 | HepG2 | liver: | n/a | chr20:25937931-25937947 chr20:25937932-25937946 chr20:25937928-25937943 chr20:25937929-25937949 |
31 | MAFK | chr20:25937941-25937978 | HepG2 | liver: | n/a | n/a |
32 | MAFK | chr20:25929463-25929603 | HepG2 | liver: | n/a | n/a |
33 | MAFK | chr20:25937351-25937437 | HepG2 | liver: | n/a | n/a |
34 | MAFK | chr20:25929516-25929567 | HepG2 | liver: | n/a | n/a |
35 | MAFK | chr20:25937288-25937477 | HepG2 | liver: | n/a | n/a |
36 | MYC | chr20:25912848-25913105 | MCF10A-Er-Src | breast: | n/a | n/a |
37 | MYC | chr20:25913594-25913617 | K562 | blood: | n/a | n/a |
38 | POLR2A | chr20:25906976-25907210 | A549 | lung: | n/a | n/a |
39 | POLR2A | chr20:25926173-25926339 | Gliobla | brain: | n/a | n/a |
40 | POLR2A | chr20:25937190-25937294 | Gliobla | brain: | n/a | n/a |
41 | POLR2A | chr20:25908427-25908599 | MCF10A-Er-Src | breast: | n/a | n/a |
42 | POLR2A | chr20:25942712-25942739 | MCF10A-Er-Src | breast: | n/a | n/a |
43 | POLR2A | chr20:25909822-25909946 | A549 | lung: | n/a | n/a |
44 | POLR2A | chr20:25945966-25946047 | A549 | lung: | n/a | n/a |
45 | POLR2A | chr20:25918297-25918448 | MCF10A-Er-Src | breast: | n/a | n/a |
46 | POLR2A | chr20:25929523-25929812 | MCF10A-Er-Src | breast: | n/a | n/a |
47 | POLR2A | chr20:25945888-25945912 | A549 | lung: | n/a | n/a |
48 | POLR2A | chr20:25944002-25944115 | GM12878 | blood: | n/a | n/a |
49 | RXRA | chr20:25905420-25905784 | HepG2 | liver: | n/a | n/a |
50 | SP1 | chr20:25905228-25905342 | HepG2 | liver: | n/a | n/a |
No data |
No data |
(count:12 , 50 per page) page:
1
No. | lncRNA name | Chromosome Location | lncRNA alias |
---|---|---|---|
1 | lnc-FAM182A-1 | chr20:25945639-25949924 | ENSG00000226203 |
2 | lnc-FAM182A-1 | chr20:25945639-25949923 | XLOC_013502 |
3 | lnc-FAM182A-1 | chr20:25936722-25936846 | XLOC_013502 |
4 | lnc-FAM182A-1 | chr20:25943698-25943832 | XLOC_013502 |
5 | lnc-FAM182A-1 | chr20:25936722-25936846 | ENSG00000226203 |
6 | lnc-FAM182B-11 | chr20:25938891-25939167 | NONHSAT079205 |
7 | lnc-FAM182A-1 | chr20:25943698-25943832 | ENSG00000226203 |
8 | lnc-FAM182B-10 | chr20:25930850-25930935 | NONHSAT079203 |
9 | lnc-FAM182B-10 | chr20:25930172-25930528 | NONHSAT079203 |
10 | lnc-FAM182A-1 | chr20:25936448-25936505 | ENSG00000226203 |
11 | lnc-FAM182A-1 | chr20:25936453-25936505 | XLOC_013502 |
12 | lnc-FAM182B-11 | chr20:25937427-25937691 | NONHSAT079205 |
No data |
No data |
Variant related genes | Relation type |
---|---|
ENSG00000226203 | TF binding region |
CFTRP1 | TF binding region |
No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | rs62212289 | chr20:25905234-25905235 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
2 | rs201835753 | chr20:25905251-25905252 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
3 | rs79104437 | chr20:25905256-25905257 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
4 | rs13036925 | chr20:25905264-25905265 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
5 | rs559425754 | chr20:25905267-25905268 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
6 | rs113011497 | chr20:25905286-25905287 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
7 | rs139434720 | chr20:25905290-25905291 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
8 | rs528057360 | chr20:25905296-25905297 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
9 | rs140159851 | chr20:25905307-25905308 | Inactive region | TF binding region | 1 gene(s) | Overlapped CNVs | n/a |
10 | rs376265852 | chr20:25909809-25909810 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
11 | rs8183973 | chr20:25909810-25909811 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
12 | rs370914596 | chr20:25909833-25909834 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
13 | rs575768194 | chr20:25909834-25909835 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
14 | rs544768361 | chr20:25909841-25909842 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
15 | rs62212318 | chr20:25909842-25909843 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
16 | rs374542721 | chr20:25909843-25909844 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
17 | rs62212319 | chr20:25909863-25909864 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
18 | rs201396216 | chr20:25909865-25909866 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
19 | rs112421168 | chr20:25909877-25909878 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
20 | rs113179720 | chr20:25909878-25909879 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
21 | rs111756096 | chr20:25909879-25909880 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
22 | rs111453058 | chr20:25909883-25909884 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
23 | rs555310047 | chr20:25909898-25909899 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
24 | rs112513465 | chr20:25909914-25909915 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
25 | rs201775723 | chr20:25909918-25909919 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
26 | rs146249836 | chr20:25909925-25909926 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
27 | rs6037287 | chr20:25909931-25909932 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
28 | rs113138285 | chr20:25909938-25909939 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
29 | rs373788865 | chr20:25909958-25909959 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
30 | rs367939744 | chr20:25909959-25909960 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
31 | rs62212320 | chr20:25909962-25909963 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
32 | rs6037288 | chr20:25909975-25909976 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
33 | rs62212321 | chr20:25909986-25909987 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
34 | rs115793029 | chr20:25909991-25909992 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
35 | rs575260309 | chr20:25910003-25910004 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
36 | rs188245928 | chr20:25910007-25910008 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
37 | rs76924037 | chr20:25910029-25910030 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
38 | rs6115406 | chr20:25910036-25910037 | Enhancers | n/a | n/a | LD-proxies of rSNPOverlapped rCNV | n/a |
39 | rs371776506 | chr20:25910045-25910046 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
40 | rs78583470 | chr20:25910047-25910048 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
41 | rs199956654 | chr20:25910071-25910072 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
42 | rs62212322 | chr20:25910082-25910083 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
43 | rs1973930 | chr20:25910111-25910112 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
44 | rs145874634 | chr20:25910121-25910122 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
45 | rs200140831 | chr20:25910126-25910127 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
46 | rs546003149 | chr20:25910139-25910140 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
47 | rs375533024 | chr20:25910144-25910145 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
48 | rs78097445 | chr20:25910163-25910164 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
49 | rs201787862 | chr20:25910201-25910202 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
50 | rs200322820 | chr20:25910206-25910207 | Enhancers | n/a | n/a | Overlapped CNVs | n/a |
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 |
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 |