|
||||||
|
 | |
| |
| Differntial gene expression between RNA A-to-I edited versus non-edited samples |
| |
| |
| The effects of the RNA editing to the stability of the RNA structures |
| |
| |
| |
|
Gene summary for CDK2AP1 |
 Gene summary |
| Gene information | Gene symbol | CDK2AP1 | Gene ID | 8099 |
| Gene name | cyclin dependent kinase 2 associated protein 1 | |
| Synonyms | DOC1|DORC1|ST19|doc-1|p12DOC-1 | |
| Cytomap | 12q24.31 | |
| Type of gene | protein-coding | |
| Description | cyclin-dependent kinase 2-associated protein 1CDK2-associated protein 1Deleted in oral cancer-1deleted in oral cancer 1putative oral cancer suppressor | |
| Modification date | 20200313 | |
| UniProtAcc | O14519, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| CDK2AP1 | GO:0001934 | positive regulation of protein phosphorylation | 9506968 |
Top |
RNA A-to-I events for CDK2AP1 |
| RNA A-to-I editing events in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. * This pie chart shows the number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
 |
| RNA editing frequencies across three data sets. |
 |
| The number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
 |
| RNA A-to-I editing events in AD. |
| ADediting_324096(123258241, -), ADediting_324097(123258263, -), ADediting_324098(123258280, -), ADediting_324099(123258287, -), ADediting_324100(123258323, -), ADediting_324101(123260868, -), ADediting_324102(123260910, -), ADediting_324103(123262611, -), ADediting_324104(123262714, -), ADediting_324105(123262716, -), ADediting_324106(123262775, -), ADediting_324107(123262792, -), ADediting_1531358(123258129, -), ADediting_1531359(123258200, -), ADediting_1531360(123258281, -), ADediting_1531361(123260851, -), |
Top |
RNA editing positional annotations for CDK2AP1 using Annovar |
| Protein coding RNA editing(s). |
| ADeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| Gene structure information of RNA editing(s). |
| ADeditome ID | Position | Variant type |
| ADediting_324096 | chr12_123258241_- | intronic |
| ADediting_324097 | chr12_123258263_- | intronic |
| ADediting_324098 | chr12_123258280_- | intronic |
| ADediting_324099 | chr12_123258287_- | intronic |
| ADediting_324100 | chr12_123258323_- | intronic |
| ADediting_324101 | chr12_123260868_- | UTR3 |
| ADediting_324102 | chr12_123260910_- | UTR3 |
| ADediting_324103 | chr12_123262611_- | intronic |
| ADediting_324104 | chr12_123262714_- | intronic |
| ADediting_324105 | chr12_123262716_- | intronic |
| ADediting_324106 | chr12_123262775_- | intronic |
| ADediting_324107 | chr12_123262792_- | intronic |
| ADediting_1531358 | chr12_123258129_- | intronic |
| ADediting_1531359 | chr12_123258200_- | intronic |
| ADediting_1531360 | chr12_123258281_- | intronic |
| ADediting_1531361 | chr12_123260851_- | UTR3 |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_324096 | chr12_123258241_- | SINE | Alu | Name=AluSg |
| ADediting_324097 | chr12_123258263_- | SINE | Alu | Name=AluSg |
| ADediting_324098 | chr12_123258280_- | SINE | Alu | Name=AluSg |
| ADediting_324099 | chr12_123258287_- | SINE | Alu | Name=AluSg |
| ADediting_324100 | chr12_123258323_- | SINE | Alu | Name=AluSg |
| ADediting_324101 | chr12_123260868_- | SINE | Alu | Name=AluJb |
| ADediting_324102 | chr12_123260910_- | SINE | Alu | Name=AluJb |
| ADediting_324103 | chr12_123262611_- | SINE | Alu | Name=AluJb |
| ADediting_324104 | chr12_123262714_- | SINE | Alu | Name=AluJb |
| ADediting_324105 | chr12_123262716_- | SINE | Alu | Name=AluJb |
| ADediting_324106 | chr12_123262775_- | SINE | Alu | Name=AluJb |
| ADediting_324107 | chr12_123262792_- | SINE | Alu | Name=AluJb |
| ADediting_1531358 | chr12_123258129_- | SINE | Alu | Name=AluSg |
| ADediting_1531359 | chr12_123258200_- | SINE | Alu | Name=AluSg |
| ADediting_1531360 | chr12_123258281_- | SINE | Alu | Name=AluSg |
| ADediting_1531361 | chr12_123260851_- | SINE | Alu | Name=AluJb |
Top |
RNA A-to-I editing events in the alternative splicing sites for CDK2AP1 |
| RNA A-to-I editing(s) in the alternative splicing sites. |
| AStype | ADeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
| Differential pencent of spliced in (PSI) between RNA A-to-I edited and non-edited samples |
Top |
Differntial gene expression between RNA A-to-I edited versus non-edited samples for CDK2AP1 |
| Distribution of the averaged gene expression in AD and control with or without RNA A-to-I editing event. * The grey color means N/A. |
| Distribution of the averaged gene isoform expression in AD and control with or without RNA A-to-I editing event. |
 | |
| - Differentially expressed gene between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
| - Differentially expressed transcript between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
 |
| ADeditome ID | Chr | Positoing | Skipped exon | ENSG | ENSTs |
Top |
Protein coding region RNA A-to-I editings for CDK2AP1 |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
Top |
The effects of the RNA editing to the miRNA binding sites for CDK2AP1 |
| RNA A-to-I editings in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. |
 |
| RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA gained miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-6089 | chr12 | 123260846 | 123260852 | 7mer-m8 | 123260845 | 123260868 | 171 | -41.94 |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-6089 | chr12 | 123260846 | 123260852 | 7mer-m8 | 123260845 | 123260868 | 171 | -41.94 |
| ADediting_324101 | chr12_123260868_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-1199-5p | chr12 | 123260868 | 123260874 | 7mer-m8 | 123260867 | 123260886 | 156 | -28.57 |
| ADediting_324101 | chr12_123260868_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-6751-3p | chr12 | 123260868 | 123260874 | 7mer-m8 | 123260867 | 123260887 | 141 | -13.15 |
| ADediting_324101 | chr12_123260868_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-1199-5p | chr12 | 123260868 | 123260874 | 7mer-m8 | 123260867 | 123260886 | 156 | -28.57 |
| ADediting_324101 | chr12_123260868_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-6751-3p | chr12 | 123260868 | 123260874 | 7mer-m8 | 123260867 | 123260887 | 141 | -13.15 |
| RNA A-to-I editing in lncRNA lost miRNA binding sites. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-3929 | chr12 | 123260847 | 123260853 | 7mer-m8 | 123260846 | 123260868 | 154 | -18.54 |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-4478 | chr12 | 123260847 | 123260853 | 7mer-m8 | 123260846 | 123260862 | 155 | -27.09 |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-485-5p | chr12 | 123260846 | 123260852 | 7mer-m8 | 123260845 | 123260867 | 151 | -16.96 |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-3929 | chr12 | 123260847 | 123260853 | 7mer-m8 | 123260846 | 123260868 | 154 | -18.54 |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-4478 | chr12 | 123260847 | 123260853 | 7mer-m8 | 123260846 | 123260862 | 155 | -27.09 |
| ADediting_1531361 | chr12_123260851_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-485-5p | chr12 | 123260846 | 123260852 | 7mer-m8 | 123260845 | 123260867 | 151 | -16.96 |
| ADediting_324102 | chr12_123260910_- | ENSG00000111328.7 | ENST00000541002.7 | CDK2AP1-205 | hsa-miR-12132 | chr12 | 123260907 | 123260914 | 8mer-1a | 123260907 | 123260928 | 142 | -10.41 |
| ADediting_324102 | chr12_123260910_- | ENSG00000111328.7 | ENST00000544890.1 | CDK2AP1-210 | hsa-miR-12132 | chr12 | 123260907 | 123260914 | 8mer-1a | 123260907 | 123260928 | 142 | -10.41 |
| RNA A-to-I editing in miRNAs gained binding to lncRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs lost binding to lncRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| ADediting_107020 | chr1_37500952_- | ENSG00000111328.7 | ENST00000261692.7 | CDK2AP1-201 | hsa-miR-5581-3p | chr12 | 123261479 | 123261486 | 8mer-1a | 123261479 | 123261500 | 160 | -16.97 |
| ADediting_107020 | chr1_37500952_- | ENSG00000111328.7 | ENST00000535979.5 | CDK2AP1-203 | hsa-miR-5581-3p | chr12 | 123261479 | 123261486 | 8mer-1a | 123261479 | 123261500 | 160 | -16.97 |
| ADediting_107020 | chr1_37500952_- | ENSG00000111328.7 | ENST00000538446.5 | CDK2AP1-204 | hsa-miR-5581-3p | chr12 | 123261479 | 123261486 | 8mer-1a | 123261479 | 123261500 | 160 | -16.97 |
| ADediting_107020 | chr1_37500952_- | ENSG00000111328.7 | ENST00000542174.5 | CDK2AP1-206 | hsa-miR-5581-3p | chr12 | 123261479 | 123261486 | 8mer-1a | 123261479 | 123261500 | 160 | -16.97 |
| ADediting_107020 | chr1_37500952_- | ENSG00000111328.7 | ENST00000544658.5 | CDK2AP1-209 | hsa-miR-5581-3p | chr12 | 123261479 | 123261486 | 8mer-1a | 123261479 | 123261500 | 160 | -16.97 |
| ADediting_107020 | chr1_37500952_- | ENSG00000111328.7 | ENST00000618072.4 | CDK2AP1-211 | hsa-miR-5581-3p | chr12 | 123261479 | 123261486 | 8mer-1a | 123261479 | 123261500 | 160 | -16.97 |
| ADediting_1337758 | chr7_5495892_- | ENSG00000111328.7 | ENST00000261692.7 | CDK2AP1-201 | hsa-miR-589-5p | chr12 | 123261299 | 123261306 | 8mer-1a | 123261299 | 123261318 | 150 | -22.47 |
| ADediting_1337758 | chr7_5495892_- | ENSG00000111328.7 | ENST00000535979.5 | CDK2AP1-203 | hsa-miR-589-5p | chr12 | 123261299 | 123261306 | 8mer-1a | 123261299 | 123261318 | 150 | -22.47 |
| ADediting_1337758 | chr7_5495892_- | ENSG00000111328.7 | ENST00000538446.5 | CDK2AP1-204 | hsa-miR-589-5p | chr12 | 123261299 | 123261306 | 8mer-1a | 123261299 | 123261318 | 150 | -22.47 |
| ADediting_1337758 | chr7_5495892_- | ENSG00000111328.7 | ENST00000542174.5 | CDK2AP1-206 | hsa-miR-589-5p | chr12 | 123261299 | 123261306 | 8mer-1a | 123261299 | 123261318 | 150 | -22.47 |
| ADediting_1337758 | chr7_5495892_- | ENSG00000111328.7 | ENST00000544658.5 | CDK2AP1-209 | hsa-miR-589-5p | chr12 | 123261299 | 123261306 | 8mer-1a | 123261299 | 123261318 | 150 | -22.47 |
| ADediting_1337758 | chr7_5495892_- | ENSG00000111328.7 | ENST00000618072.4 | CDK2AP1-211 | hsa-miR-589-5p | chr12 | 123261299 | 123261306 | 8mer-1a | 123261299 | 123261318 | 150 | -22.47 |
| RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA. |
| ADeditom_ID | Position | ENSG | ENST | Transcript name | miRNA ID | Chromosome | Targt | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| Differentially expressed gene-miRNA network |
Top |
The effects of the RNA editing to the stability of the RNA structures for CDK2AP1 |
| - RNA A-to-I editing in mRNA. * 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. |
| ENST00000541002.7 | lncRNA |  |  |
| ENST00000544890.1 | lncRNA |  |  |
| RNA A-to-I editing in miRNA. |
| ADeditom_ID | ENST | mir_ID | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| RNA A-to-I editing in mRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| RNA A-to-I editing in lncRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| ADediting_1531361 | ENST00000541002.7 | chr12_123260851_- | 448 | -312.10 | -312.80 | -318.10 |
| ADediting_324101 | ENST00000541002.7 | chr12_123260868_- | 431 | -316.30 | -312.80 | -318.10 |
| ADediting_324102 | ENST00000541002.7 | chr12_123260910_- | 389 | -315.30 | -312.80 | -318.10 |
| ADediting_1531361 | ENST00000544890.1 | chr12_123260851_- | 369 | -203.80 | -204.50 | -208.00 |
| ADediting_324101 | ENST00000544890.1 | chr12_123260868_- | 352 | -207.30 | -204.50 | -208.00 |
| ADediting_324102 | ENST00000544890.1 | chr12_123260910_- | 310 | -207.00 | -204.50 | -208.00 |
Top |
Relation with ADAR for CDK2AP1 |
| Correlation between ADAR gene expression and RNA editing frequency |
| Tissue | ADeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
| CER | ADediting_1531358 | chr12_123258129_- | 0.00877291033706291 | 0.213301627031451 | 6.14357221194804e-05 | 0.321164562547024 | 0.00103857388403469 | 0.265206295694363 |
| CER | ADediting_1531359 | chr12_123258200_- | 0.0086122041475964 | 0.213802257167215 | 1.96629627940814e-05 | 0.340890532444235 | 0.0278250464984493 | 0.179647364413378 |
| CER | ADediting_324097 | chr12_123258263_- | 0.0396301631528186 | 0.168209113611894 | 4.62914972756318e-07 | 0.397813227004471 | 0.0173279500803484 | 0.194072015677575 |
| CER | ADediting_324099 | chr12_123258287_- | 0.0029632602672156 | 0.241052241331081 | 1.07018648865337e-07 | 0.417433739046456 | 0.0117978399264789 | 0.205129537026562 |
| DLPFC | ADediting_324100 | chr12_123258323_- | 0.32851133071304 | 0.0556783709341084 | 0.614880866168846 | -0.028685218476704 | 4.71675959077811e-10 | 0.344260421168583 |
| CER | ADediting_324100 | chr12_123258323_- | 0.130944136164724 | 0.123883544963185 | 8.38884904814583e-05 | 0.31552591778832 | 0.0162396950470251 | 0.195976160179952 |
| Correlation between ADAR gene expression and this gene's expression |
| Tissue | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
| DLPFC | 9.32220602278149e-09 | 0.318892627585553 | 2.39521616988915e-06 | 0.264191632487871 | 4.01553990412461e-07 | 0.283089475456854 |
| AC | 1.48849732720206e-40 | 0.71578960321689 | 3.55874615190396e-23 | 0.572554398389688 | 2.50476310542768e-19 | 0.527731147656324 |
| CER | 2.66226054627593e-06 | 0.372590099339108 | 1.36588852366444e-13 | 0.556844621614131 | 8.08466100413476e-05 | 0.316200390233691 |
| TCX | 0.122467987018046 | 0.126658769926862 | 0.0175211760036206 | -0.193744838789255 | 1.50692601503297e-10 | 0.492708401852297 |
| FP | 0.306383242145795 | 0.0770941237099761 | 0.0805161801820444 | -0.131352814572308 | 2.71639129890716e-06 | 0.343292050619538 |
| IFG | 0.0114020732416807 | 0.497448055989032 | 0.0054536686513774 | 0.538800047737221 | 0.0456719381632843 | 0.403174946980503 |
| PG | 3.82597288334231e-25 | 0.665361676343474 | 5.06932477152515e-10 | 0.435794105498716 | 0.0533639224394016 | 0.141897437620628 |
| STG | 0.682034063654589 | 0.045357350549382 | 0.175915193665216 | -0.149079480627231 | 2.80015711241377e-06 | 0.48586228130384 |
Top |
Relation with AD stages for CDK2AP1 |
| Correlation between AD stages and RNA editing frequency |
| Tissue | ADeditomID | position | P-val | Coeff. |
| CER | ADediting_324097 | chr12_123258263_- | 0.000358351607448435 | 0.337233622732887 |
| Correlation between AD stages and this gene's expression |
| Tissue | P-val | Coeff. |
| PCC | 6.47189407370185e-06 | 0.319843398524111 |
| CER | 9.05421653523603e-06 | 0.412709133434607 |
| TCX | 4.04782498248087e-10 | 0.560808709633642 |
| PG | 1.44277031848387e-06 | 0.344775965282226 |
Top |
RelatedDrugs for CDK2AP1 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.0 2018-04-02) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
Top |
RelatedDiseases for CDK2AP1 |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
Copyright 2018-Present -The University of Texas Health Science Center at Houston (UTHealth)
|