![]() |
||||||
|
![]() | |
![]() | |
![]() | Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples |
![]() | |
![]() | |
![]() | The effects of the RNA editing to the stability of the RNA structures |
![]() | |
![]() | |
![]() | |
![]() | |
![]() |
Editing gene: VPS52 (CAeditome ID:6293) |
Gene summary for VPS52 |
![]() |
Gene information | Gene symbol | VPS52 | Gene ID | 6293 |
Gene name | VPS52 subunit of GARP complex | |
Synonyms | ARE1|SAC2|SACM2L|dJ1033B10.5 | |
Cytomap | 6p21.32 | |
Type of gene | protein-coding | |
Description | vacuolar protein sorting-associated protein 52 homologSAC2 suppressor of actin mutations 2-like proteinVPS52, GARP complex subunitvacuolar protein sorting 52 homolog | |
Modification date | 20210518 | |
UniProtAcc | Q8N1B4 | |
Context |
![]() |
Gene | GO ID | GO term | PubMed ID |
VPS52 | GO:0007041 | Vacuolar protein sorting-associated protein 52 homolog | 25799061 |
VPS52 | GO:0005794 | Vacuolar protein sorting-associated protein 52 homolog | 15878329 |
VPS52 | GO:0016020 | Vacuolar protein sorting-associated protein 52 homolog | 25799061 |
VPS52 | GO:0048471 | Vacuolar protein sorting-associated protein 52 homolog | 15878329 |
VPS52 | GO:0055037 | Vacuolar protein sorting-associated protein 52 homolog | 25799061 |
VPS52 | GO:0000938 | Vacuolar protein sorting-associated protein 52 homolog | 25799061 |
VPS52 | GO:1990745 | Vacuolar protein sorting-associated protein 52 homolog | 25799061 |
VPS52 | GO:1990745 | Vacuolar protein sorting-associated protein 52 homolog | 25799061 |
Top |
RNA A-to-I events for VPS52 |
![]() |
![]() |
![]() |
![]() |
![]() |
CAediting_469496(33255437, -), CAediting_469497(33255914, -), CAediting_469498(33255915, -), CAediting_469499(33257893, -), CAediting_469500(33257899, -), CAediting_469501(33257902, -), CAediting_469502(33257903, -), CAediting_469503(33257958, -), CAediting_469504(33258722, -), CAediting_469505(33258728, -), CAediting_469506(33260267, -), CAediting_469507(33260278, -), CAediting_469508(33260281, -), CAediting_469509(33260306, -), CAediting_469510(33260307, -), CAediting_469511(33260308, -), CAediting_469512(33260312, -), CAediting_469513(33260319, -), CAediting_469514(33260329, -), CAediting_469515(33261211, -), CAediting_469516(33261345, -), CAediting_469517(33261355, -), CAediting_469518(33261367, -), CAediting_469519(33261380, -), CAediting_469520(33261384, -), CAediting_469521(33261410, -), CAediting_469522(33261441, -), CAediting_469523(33263164, -), |
Top |
RNA editing positional annotations for VPS52 using Annovar |
![]() |
CAeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
![]() |
CAeditome ID | Position | Variant type |
CAediting_469496 | chr6_33255437_- | ncRNA_intronic |
CAediting_469497 | chr6_33255914_- | ncRNA_intronic |
CAediting_469498 | chr6_33255915_- | ncRNA_intronic |
CAediting_469499 | chr6_33257893_- | ncRNA_intronic |
CAediting_469500 | chr6_33257899_- | ncRNA_intronic |
CAediting_469501 | chr6_33257902_- | ncRNA_intronic |
CAediting_469502 | chr6_33257903_- | ncRNA_intronic |
CAediting_469503 | chr6_33257958_- | ncRNA_intronic |
CAediting_469504 | chr6_33258722_- | ncRNA_intronic |
CAediting_469505 | chr6_33258728_- | ncRNA_intronic |
CAediting_469506 | chr6_33260267_- | ncRNA_intronic |
CAediting_469507 | chr6_33260278_- | ncRNA_intronic |
CAediting_469508 | chr6_33260281_- | ncRNA_intronic |
CAediting_469509 | chr6_33260306_- | ncRNA_intronic |
CAediting_469510 | chr6_33260307_- | ncRNA_intronic |
CAediting_469511 | chr6_33260308_- | ncRNA_intronic |
CAediting_469512 | chr6_33260312_- | ncRNA_intronic |
CAediting_469513 | chr6_33260319_- | ncRNA_intronic |
CAediting_469514 | chr6_33260329_- | ncRNA_intronic |
CAediting_469515 | chr6_33261211_- | ncRNA_intronic |
CAediting_469516 | chr6_33261345_- | ncRNA_intronic |
CAediting_469517 | chr6_33261355_- | ncRNA_intronic |
CAediting_469518 | chr6_33261367_- | ncRNA_intronic |
CAediting_469519 | chr6_33261380_- | ncRNA_intronic |
CAediting_469520 | chr6_33261384_- | ncRNA_intronic |
CAediting_469521 | chr6_33261410_- | ncRNA_intronic |
CAediting_469522 | chr6_33261441_- | ncRNA_intronic |
CAediting_469523 | chr6_33263164_- | ncRNA_intronic |
![]() |
CAeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
CAediting_469496 | chr6_33255437_- | SINE | Alu | AluJo |
CAediting_469497 | chr6_33255914_- | SINE | Alu | AluJo |
CAediting_469498 | chr6_33255915_- | SINE | Alu | AluJo |
CAediting_469499 | chr6_33257893_- | SINE | Alu | AluJb |
CAediting_469500 | chr6_33257899_- | SINE | Alu | AluJb |
CAediting_469501 | chr6_33257902_- | SINE | Alu | AluJb |
CAediting_469502 | chr6_33257903_- | SINE | Alu | AluJb |
CAediting_469503 | chr6_33257958_- | SINE | Alu | AluJb |
CAediting_469504 | chr6_33258722_- | SINE | Alu | AluSz6 |
CAediting_469505 | chr6_33258728_- | SINE | Alu | AluSz6 |
CAediting_469506 | chr6_33260267_- | SINE | Alu | AluJr4 |
CAediting_469507 | chr6_33260278_- | SINE | Alu | AluJr4 |
CAediting_469508 | chr6_33260281_- | SINE | Alu | AluJr4 |
CAediting_469509 | chr6_33260306_- | SINE | Alu | AluJr4 |
CAediting_469510 | chr6_33260307_- | SINE | Alu | AluJr4 |
CAediting_469511 | chr6_33260308_- | SINE | Alu | AluJr4 |
CAediting_469512 | chr6_33260312_- | SINE | Alu | AluJr4 |
CAediting_469513 | chr6_33260319_- | SINE | Alu | AluJr4 |
CAediting_469514 | chr6_33260329_- | SINE | Alu | AluJr4 |
CAediting_469515 | chr6_33261211_- | SINE | Alu | AluSx1 |
CAediting_469516 | chr6_33261345_- | SINE | Alu | AluSx1 |
CAediting_469517 | chr6_33261355_- | SINE | Alu | AluSx1 |
CAediting_469518 | chr6_33261367_- | SINE | Alu | AluSx1 |
CAediting_469519 | chr6_33261380_- | SINE | Alu | AluSx1 |
CAediting_469520 | chr6_33261384_- | SINE | Alu | AluSx1 |
CAediting_469521 | chr6_33261410_- | SINE | Alu | AluSx1 |
CAediting_469522 | chr6_33261441_- | SINE | Alu | AluSx1 |
CAediting_469523 | chr6_33263164_- | SINE | Alu | AluJb |
Top |
RNA A-to-I editing events in the alternative splicing sites for VPS52 |
![]() |
AStype | CAeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
![]() |
![]() |
Top |
Differntial gene expression between RNA A-to-I edited versus non-edited samples for VPS52 |
![]() * The grey color means N/A. |
![]() |
![]() |
![]() |
![]() * Click on the image to enlarge it in a new window. |
Top |
Protein coding region RNA A-to-I editings for VPS52 |
![]() * Click on the image to enlarge it in a new window. |
Top |
The effects of the RNA editing to the miRNA binding sites for VPS52 |
**If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page. |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
CAediting_688080 | chr9_63819626_+ | ENSG00000223501.7 | ENST00000482399 | hsa-miR-4477b | 33263831 | 33263837 | 7mer-m8 | 33263830 | 33263851 | 146 | -11.6 |
CAediting_524911 | chr7_5495852_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-589-3p | 33269019 | 33269025 | 7mer-m8 | 33269018 | 33269041 | 152 | -23.03 |
CAediting_1054808 | chr15_66496985_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-4512 | 33267228 | 33267234 | 7mer-m8 | 33267227 | 33267248 | 150 | -20.67 |
CAediting_1160181 | chr17_7017644_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-195-3p | 33264813 | 33264819 | 7mer-m8 | 33264812 | 33264832 | 148 | -11.04 |
CAediting_396018 | chr5_1062918_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-4635 | 33263830 | 33263836 | 7mer-m8 | 33263829 | 33263847 | 155 | -20.52 |
CAediting_1229415 | chr17_67471547_+ | ENSG00000223501.7 | ENST00000482399 | hsa-miR-548aa | 33251901 | 33251906 | 6mer | 33251900 | 33251924 | 142 | -14.86 |
CAediting_1229415 | chr17_67471547_+ | ENSG00000223501.7 | ENST00000482399 | hsa-miR-548aa | 33251608 | 33251614 | 7mer-m8 | 33251607 | 33251635 | 153 | -16.83 |
CAediting_1368054 | chr19_46709310_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-320e | 33250961 | 33250967 | 7mer-m8 | 33250960 | 33250977 | 148 | -22.71 |
CAediting_468389 | chr6_31355314_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-6891-5p | 33250457 | 33250464 | 8mer-1a | 33250457 | 33250475 | 140 | -17.34 |
![]() |
CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
CAediting_748296 | chr10_51299626_+ | ENSG00000223501.7 | ENST00000482399 | hsa-miR-605-3p | 33250703 | 33250710 | 8mer-1a | 33250703 | 33250725 | 146 | -13.71 |
CAediting_468389 | chr6_31355314_- | ENSG00000223501.7 | ENST00000482399 | hsa-miR-6891-5p | 33250564 | 33250570 | 7mer-m8 | 33250563 | 33250580 | 155 | -20.52 |
![]() |
Top |
The effects of the RNA editing to the stability of the RNA structures for VPS52 |
![]() * Click on the image to enlarge it in a new window. |
ENST | ENST type | RNA structure without RNA A-to-I editing. | RNA structure with RNA A-to-I editing. |
![]() |
CAeditom_ID | ENST | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
Top |
Relation with ADAR for VPS52 |
![]() |
Cancer | CAeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
STAD | CAediting_469506 | chr6_33260267_- | 0.0170616611563454 | 0.266054595210615 | . | . | . | . |
THCA | CAediting_469506 | chr6_33260267_- | 0.00102290290842787 | 0.289180278578406 | . | . | . | . |
PRAD | CAediting_469508 | chr6_33260281_- | . | . | 0.00100069030633026 | 0.224418384623737 | . | . |
KIRP | CAediting_469508 | chr6_33260281_- | . | . | 6.26424998080876e-05 | 0.49683777002043 | . | . |
SKCM | CAediting_469508 | chr6_33260281_- | . | . | 3.65355522041241e-08 | 0.581372945975484 | 0.0222563814141867 | 0.261962331229419 |
LGG | CAediting_469510 | chr6_33260307_- | . | . | 0.0243504793245136 | 0.248542659897866 | . | . |
BRCA | CAediting_469510 | chr6_33260307_- | 0.00231923474040355 | 0.209111948022859 | . | . | . | . |
LUAD | CAediting_469510 | chr6_33260307_- | 0.0157604054956355 | 0.300707683675758 | . | . | 0.0105204653385502 | 0.317709299838117 |
PRAD | CAediting_469510 | chr6_33260307_- | . | . | 0.0475377512411656 | 0.138233729955615 | . | . |
STAD | CAediting_469510 | chr6_33260307_- | . | . | 6.07076989354843e-09 | 0.55578161750574 | . | . |
THCA | CAediting_469510 | chr6_33260307_- | 0.00257787363710236 | 0.270556031355386 | . | . | . | . |
KIRP | CAediting_469510 | chr6_33260307_- | . | . | 0.00383605419458833 | 0.390562552948853 | . | . |
SKCM | CAediting_469510 | chr6_33260307_- | . | . | 0.00250796210843324 | 0.303536327480584 | . | . |
ESCA | CAediting_469513 | chr6_33260319_- | 0.0093104310901885 | 0.268318054105454 | . | . | . | . |
THYM | CAediting_469513 | chr6_33260319_- | 0.0271229943465051 | 0.260466325410024 | . | . | . | . |
BLCA | CAediting_469514 | chr6_33260329_- | 0.0296448918414897 | 0.288300054341276 | . | . | . | . |
BRCA | CAediting_469514 | chr6_33260329_- | 2.84132152736744e-09 | 0.351553537896658 | . | . | . | . |
CESC | CAediting_469514 | chr6_33260329_- | 0.0135830266580652 | 0.291687642639511 | . | . | . | . |
LUSC | CAediting_469514 | chr6_33260329_- | 0.00903359402861137 | 0.319015946224261 | . | . | . | . |
PRAD | CAediting_469514 | chr6_33260329_- | 6.76447855233903e-05 | 0.281353841841603 | . | . | . | . |
STAD | CAediting_469514 | chr6_33260329_- | 0.0376102598638947 | 0.178492644402498 | . | . | . | . |
UCEC | CAediting_469514 | chr6_33260329_- | 0.00705300380719713 | 0.350130224722071 | . | . | . | . |
THYM | CAediting_469514 | chr6_33260329_- | 0.00433882520682845 | 0.37887011200055 | . | . | 0.0297422239210267 | 0.293332700097965 |
Top |
Relation with cancer stages for VPS52 |
![]() |
Cancer | Stage_type | CAeditomID | position | P-val | Coeff. |
KIRC | pathologic_stage | CAediting_469513 | chr6_33260319_- | 0.0115193519676408 | 0.2697338034631 |
STAD | pathologic_stage | CAediting_469506 | chr6_33260267_- | 0.0230413234650274 | 0.25880704132828 |
STAD | pathologic_stage | CAediting_469513 | chr6_33260319_- | 0.0227787299495576 | 0.175107480024453 |
THCA | pathologic_stage | CAediting_469506 | chr6_33260267_- | 0.0328890329659961 | 0.190218368286443 |
THCA | pathologic_stage | CAediting_469513 | chr6_33260319_- | 0.00539256670452927 | 0.176200742399278 |
Top |
Relation with survival for VPS52 |
![]() |
Cancer | CAeditomID | position | KMpvalue | Coxpvalue | CoxHR |
LIHC | CAediting_469514 | chr6_33260329_- | 0.0198199471632511 | 0.0108432 | 114.396 |
Top |
RelatedDrugs for VPS52 |
![]() (DrugBank Version 5.1.8 2021-01-03) |
Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for VPS52 |
![]() (DisGeNet 7.0) |
Gene | Disease ID | Disease name | # pubmeds | Source |
VPS52 | C0033578 | Prostatic Neoplasms | 1 | CTD_human |
VPS52 | C0376358 | Malignant neoplasm of prostate | 1 | CTD_human |