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| Differntial gene expression between RNA A-to-I edited versus non-edited samples |
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| The effects of the RNA editing to the stability of the RNA structures |
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Gene summary for COPB2 |
 Gene summary |
| Gene information | Gene symbol | COPB2 | Gene ID | 9276 |
| Gene name | COPI coat complex subunit beta 2 | |
| Synonyms | MCPH19|beta'-COP | |
| Cytomap | 3q23 | |
| Type of gene | protein-coding | |
| Description | coatomer subunit beta'beta'-coat proteinbetaprime-COPcoatomer binding complex, beta prime subunitcoatomer protein complex subunit beta 2coatomer protein complex subunit beta primecoatomer protein complex, subunit beta 2 (beta prime)p102 | |
| Modification date | 20200313 | |
| UniProtAcc | P35606, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| COPB2 | GO:0006891 | intra-Golgi vesicle-mediated transport | 8335000 |
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RNA A-to-I events for COPB2 |
| 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). |
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| RNA editing frequencies across three data sets. |
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| The number of RNA A-to-I editing events in different types of transcripts (# event, percentage). |
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| RNA A-to-I editing events in AD. |
| ADediting_1027072(139385189, -), ADediting_1027073(139386287, -), ADediting_1027074(139386319, -), ADediting_1027075(139386354, -), ADediting_1027076(139386399, -), ADediting_1027077(139386403, -), ADediting_1027078(139386411, -), ADediting_1027079(139386951, -), ADediting_1027080(139386964, -), ADediting_1027081(139387099, -), ADediting_1027082(139387111, -), ADediting_1027083(139387128, -), ADediting_1027084(139387129, -), ADediting_1027085(139387135, -), ADediting_1027086(139387148, -), ADediting_1027087(139387149, -), ADediting_1027088(139387154, -), ADediting_1027089(139387165, -), ADediting_1027090(139387197, -), ADediting_1027091(139387202, -), ADediting_1027092(139387205, -), ADediting_1027093(139388737, -), ADediting_1027094(139388790, -), ADediting_1572291(139385126, -), |
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RNA editing positional annotations for COPB2 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_1027072 | chr3_139385189_- | UTR5 |
| ADediting_1027073 | chr3_139386287_- | intronic |
| ADediting_1027074 | chr3_139386319_- | intronic |
| ADediting_1027075 | chr3_139386354_- | intronic |
| ADediting_1027076 | chr3_139386399_- | intronic |
| ADediting_1027077 | chr3_139386403_- | intronic |
| ADediting_1027078 | chr3_139386411_- | intronic |
| ADediting_1027079 | chr3_139386951_- | intronic |
| ADediting_1027080 | chr3_139386964_- | intronic |
| ADediting_1027081 | chr3_139387099_- | intronic |
| ADediting_1027082 | chr3_139387111_- | intronic |
| ADediting_1027083 | chr3_139387128_- | intronic |
| ADediting_1027084 | chr3_139387129_- | intronic |
| ADediting_1027085 | chr3_139387135_- | intronic |
| ADediting_1027086 | chr3_139387148_- | intronic |
| ADediting_1027087 | chr3_139387149_- | intronic |
| ADediting_1027088 | chr3_139387154_- | intronic |
| ADediting_1027089 | chr3_139387165_- | intronic |
| ADediting_1027090 | chr3_139387197_- | intronic |
| ADediting_1027091 | chr3_139387202_- | intronic |
| ADediting_1027092 | chr3_139387205_- | intronic |
| ADediting_1027093 | chr3_139388737_- | intronic |
| ADediting_1027094 | chr3_139388790_- | intronic |
| ADediting_1572291 | chr3_139385126_- | UTR5 |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_1027072 | chr3_139385189_- | SINE | Alu | Name=AluSc8 |
| ADediting_1027073 | chr3_139386287_- | SINE | Alu | Name=AluSx4 |
| ADediting_1027074 | chr3_139386319_- | SINE | Alu | Name=AluSx4 |
| ADediting_1027075 | chr3_139386354_- | SINE | Alu | Name=AluSx4 |
| ADediting_1027076 | chr3_139386399_- | SINE | Alu | Name=AluSx4 |
| ADediting_1027077 | chr3_139386403_- | SINE | Alu | Name=AluSx4 |
| ADediting_1027078 | chr3_139386411_- | SINE | Alu | Name=AluSx4 |
| ADediting_1027079 | chr3_139386951_- | SINE | Alu | Name=AluSx |
| ADediting_1027080 | chr3_139386964_- | SINE | Alu | Name=AluSx |
| ADediting_1027081 | chr3_139387099_- | SINE | Alu | Name=AluSx |
| ADediting_1027082 | chr3_139387111_- | SINE | Alu | Name=AluSx |
| ADediting_1027083 | chr3_139387128_- | SINE | Alu | Name=AluSx |
| ADediting_1027084 | chr3_139387129_- | SINE | Alu | Name=AluSx |
| ADediting_1027085 | chr3_139387135_- | SINE | Alu | Name=AluSx |
| ADediting_1027086 | chr3_139387148_- | SINE | Alu | Name=AluSx |
| ADediting_1027087 | chr3_139387149_- | SINE | Alu | Name=AluSx |
| ADediting_1027088 | chr3_139387154_- | SINE | Alu | Name=AluSx |
| ADediting_1027089 | chr3_139387165_- | SINE | Alu | Name=AluSx |
| ADediting_1027090 | chr3_139387197_- | SINE | Alu | Name=AluSx |
| ADediting_1027091 | chr3_139387202_- | SINE | Alu | Name=AluSx |
| ADediting_1027092 | chr3_139387205_- | SINE | Alu | Name=AluSx |
| ADediting_1027093 | chr3_139388737_- | SINE | Alu | Name=AluSx3 |
| ADediting_1027094 | chr3_139388790_- | SINE | Alu | Name=AluSx3 |
| ADediting_1572291 | chr3_139385126_- | SINE | Alu | Name=AluSc8 |
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RNA A-to-I editing events in the alternative splicing sites for COPB2 |
| 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 |
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Differntial gene expression between RNA A-to-I edited versus non-edited samples for COPB2 |
| 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. |
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| - 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. |
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| ADeditome ID | Chr | Positoing | Skipped exon | ENSG | ENSTs |
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Protein coding region RNA A-to-I editings for COPB2 |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
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The effects of the RNA editing to the miRNA binding sites for COPB2 |
| RNA A-to-I editings in the ROSMAP, MSBB, and Mayo data sets based on Ensembl gene isoform structure. |
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| 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_1027072 | chr3_139385189_- | ENSG00000184432.10 | ENST00000510491.5 | COPB2-207 | hsa-miR-4715-3p | chr3 | 139385186 | 139385192 | 7mer-m8 | 139385185 | 139389555 | 148 | -19.63 |
| ADediting_1572291 | chr3_139385126_- | ENSG00000184432.10 | ENST00000510491.5 | COPB2-207 | hsa-miR-5001-3p | chr3 | 139385121 | 139385127 | 7mer-m8 | 139385120 | 139385144 | 153 | -21.28 |
| ADediting_1572291 | chr3_139385126_- | ENSG00000184432.10 | ENST00000510491.5 | COPB2-207 | hsa-miR-6778-3p | chr3 | 139385123 | 139385130 | 8mer-1a | 139385123 | 139385141 | 143 | -17.48 |
| ADediting_1572291 | chr3_139385126_- | ENSG00000184432.10 | ENST00000510491.5 | COPB2-207 | hsa-miR-6791-3p | chr3 | 139385123 | 139385129 | 7mer-1a | 139385123 | 139385142 | 145 | -24.78 |
| ADediting_1572291 | chr3_139385126_- | ENSG00000184432.10 | ENST00000510491.5 | COPB2-207 | hsa-miR-6836-3p | chr3 | 139385123 | 139385129 | 7mer-m8 | 139385122 | 139385142 | 147 | -19.02 |
| 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 |
| 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 |
| 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 |
| ADediting_1535953 | chr14_101045971_+ | ENSG00000184432.10 | ENST00000333188.10 | COPB2-201 | hsa-miR-381-3p | chr3 | 139357480 | 139357486 | 7mer-1a | 139357480 | 139357501 | 142 | -13.95 |
| ADediting_1535954 | chr14_101045974_+ | ENSG00000184432.10 | ENST00000333188.10 | COPB2-201 | hsa-miR-381-3p | chr3 | 139357480 | 139357486 | 7mer-1a | 139357480 | 139357501 | 142 | -13.95 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for COPB2 |
| - 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. |
| ENST00000513274.5 | protein_coding |  |  |
| ENST00000512242.5 | protein_coding |  |  |
| ENST00000510491.5 | lncRNA |  |  |
| ENST00000514508.1 | protein_coding |  |  |
| 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 |
| ADediting_1572291 | ENST00000513274.5 | chr3_139385126_- | 255 | -262.20 | -262.00 | -262.20 |
| ADediting_1027072 | ENST00000513274.5 | chr3_139385189_- | 192 | -260.70 | -262.00 | -262.20 |
| ADediting_1572291 | ENST00000512242.5 | chr3_139385126_- | 383 | -279.80 | -279.80 | -283.00 |
| ADediting_1027072 | ENST00000512242.5 | chr3_139385189_- | 320 | -283.00 | -279.80 | -283.00 |
| ADediting_1572291 | ENST00000514508.1 | chr3_139385126_- | 198 | -220.80 | -220.60 | -220.80 |
| ADediting_1027072 | ENST00000514508.1 | chr3_139385189_- | 135 | -220.60 | -220.60 | -220.80 |
| RNA A-to-I editing in lncRNA. |
| ADeditom_ID | ENST | Editing_Information | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
| ADediting_1572291 | ENST00000510491.5 | chr3_139385126_- | 88 | -204.00 | -203.20 | -204.00 |
| ADediting_1027072 | ENST00000510491.5 | chr3_139385189_- | 25 | -203.80 | -203.20 | -204.00 |
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Relation with ADAR for COPB2 |
| 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.) |
| 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 | 3.62695772657528e-54 | 0.736219840067536 | 1.47557881634447e-20 | 0.494899996782105 | 3.51225023868046e-30 | 0.587709510610451 |
| AC | 2.21215815550728e-82 | 0.880541987261836 | 1.07210892846617e-42 | 0.728908179125089 | 3.9491738952371e-19 | 0.525236093425453 |
| PCC | 4.16647060211298e-36 | 0.752385786168412 | 4.00971056704172e-31 | 0.714372366936573 | 0.000604278558637304 | 0.245954721242996 |
| CER | 2.3253582546616e-57 | 0.906711077879811 | 1.16554498420651e-29 | 0.761459502292122 | 0.00215745588700742 | 0.24860812808915 |
| TCX | 1.25699283663789e-33 | 0.792727969862662 | 9.39559700581184e-06 | 0.352997418712993 | 1.58908836441688e-08 | 0.441244374454086 |
| FP | 9.74870288635994e-38 | 0.780432281576506 | 7.25189953330431e-31 | 0.729672762087941 | 0.00127232215861515 | 0.239669138977831 |
| IFG | 5.61291914035144e-09 | 0.882040684739988 | 3.80612293601126e-05 | 0.727293632510873 | 0.172196379272058 | 0.281892958076346 |
| PG | 1.39679971185154e-64 | 0.889755729821057 | 1.81896358459903e-27 | 0.68847051879731 | 0.580723973200026 | 0.0407565384236235 |
| STG | 2.55180607531253e-27 | 0.873184709451892 | 5.48740468122827e-16 | 0.743497563628143 | 0.168042417794822 | 0.151810351298971 |
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Relation with AD stages for COPB2 |
| Correlation between AD stages and RNA editing frequency |
| Tissue | ADeditomID | position | P-val | Coeff. |
| Correlation between AD stages and this gene's expression |
| Tissue | P-val | Coeff. |
| CER | 0.000109382344985777 | 0.363674229575542 |
| TCX | 1.35377322175299e-08 | 0.517405417358747 |
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RelatedDrugs for COPB2 |
| 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 |
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RelatedDiseases for COPB2 |
| 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)
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