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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 RGR |
 Gene summary |
| Gene information | Gene symbol | RGR | Gene ID | 5995 |
| Gene name | retinal G protein coupled receptor | |
| Synonyms | RP44 | |
| Cytomap | 10q23.1 | |
| Type of gene | protein-coding | |
| Description | RPE-retinal G protein-coupled receptorRGR-opsin | |
| Modification date | 20200313 | |
| UniProtAcc | P47804, Q8IZJ4, | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
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RNA A-to-I events for RGR |
| 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_219942(84249341, +), ADediting_219943(84249515, +), ADediting_219944(84249585, +), ADediting_219945(84250836, +), ADediting_219946(84250890, +), ADediting_219947(84250979, +), ADediting_219948(84250980, +), ADediting_219949(84251049, +), ADediting_219950(84251051, +), ADediting_219951(84251079, +), ADediting_219952(84251096, +), ADediting_219953(84251114, +), ADediting_219954(84251115, +), ADediting_219955(84251170, +), ADediting_219956(84251565, +), ADediting_219957(84251566, +), ADediting_219958(84251593, +), ADediting_219959(84251596, +), ADediting_219960(84251606, +), ADediting_219961(84251614, +), ADediting_219962(84251624, +), ADediting_219963(84251625, +), ADediting_219964(84251648, +), ADediting_219965(84251661, +), ADediting_219966(84255628, +), ADediting_219967(84257457, +), ADediting_219968(84257463, +), |
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RNA editing positional annotations for RGR 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_219942 | chr10_84249341_+ | intronic |
| ADediting_219943 | chr10_84249515_+ | intronic |
| ADediting_219944 | chr10_84249585_+ | intronic |
| ADediting_219945 | chr10_84250836_+ | intronic |
| ADediting_219946 | chr10_84250890_+ | intronic |
| ADediting_219947 | chr10_84250979_+ | intronic |
| ADediting_219948 | chr10_84250980_+ | intronic |
| ADediting_219949 | chr10_84251049_+ | intronic |
| ADediting_219950 | chr10_84251051_+ | intronic |
| ADediting_219951 | chr10_84251079_+ | intronic |
| ADediting_219952 | chr10_84251096_+ | intronic |
| ADediting_219953 | chr10_84251114_+ | intronic |
| ADediting_219954 | chr10_84251115_+ | intronic |
| ADediting_219955 | chr10_84251170_+ | intronic |
| ADediting_219956 | chr10_84251565_+ | intronic |
| ADediting_219957 | chr10_84251566_+ | intronic |
| ADediting_219958 | chr10_84251593_+ | intronic |
| ADediting_219959 | chr10_84251596_+ | intronic |
| ADediting_219960 | chr10_84251606_+ | intronic |
| ADediting_219961 | chr10_84251614_+ | intronic |
| ADediting_219962 | chr10_84251624_+ | intronic |
| ADediting_219963 | chr10_84251625_+ | intronic |
| ADediting_219964 | chr10_84251648_+ | intronic |
| ADediting_219965 | chr10_84251661_+ | intronic |
| ADediting_219966 | chr10_84255628_+ | intronic |
| ADediting_219967 | chr10_84257457_+ | intronic |
| ADediting_219968 | chr10_84257463_+ | intronic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_219942 | chr10_84249341_+ | SINE | Alu | Name=AluSx4 |
| ADediting_219943 | chr10_84249515_+ | SINE | Alu | Name=AluSx4 |
| ADediting_219944 | chr10_84249585_+ | SINE | Alu | Name=AluSx4 |
| ADediting_219945 | chr10_84250836_+ | SINE | Alu | Name=AluSg7 |
| ADediting_219946 | chr10_84250890_+ | SINE | Alu | Name=AluSg7 |
| ADediting_219947 | chr10_84250979_+ | SINE | Alu | Name=AluSz |
| ADediting_219948 | chr10_84250980_+ | SINE | Alu | Name=AluSz |
| ADediting_219949 | chr10_84251049_+ | SINE | Alu | Name=AluSz |
| ADediting_219950 | chr10_84251051_+ | SINE | Alu | Name=AluSz |
| ADediting_219951 | chr10_84251079_+ | SINE | Alu | Name=AluSz |
| ADediting_219952 | chr10_84251096_+ | SINE | Alu | Name=AluSz |
| ADediting_219953 | chr10_84251114_+ | SINE | Alu | Name=AluSz |
| ADediting_219954 | chr10_84251115_+ | SINE | Alu | Name=AluSz |
| ADediting_219955 | chr10_84251170_+ | SINE | Alu | Name=AluSz |
| ADediting_219956 | chr10_84251565_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219957 | chr10_84251566_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219958 | chr10_84251593_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219959 | chr10_84251596_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219960 | chr10_84251606_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219961 | chr10_84251614_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219962 | chr10_84251624_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219963 | chr10_84251625_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219964 | chr10_84251648_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219965 | chr10_84251661_+ | SINE | Alu | Name=AluSc8 |
| ADediting_219967 | chr10_84257457_+ | SINE | Alu | Name=AluJo |
| ADediting_219968 | chr10_84257463_+ | SINE | Alu | Name=AluJo |
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RNA A-to-I editing events in the alternative splicing sites for RGR |
| 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 RGR |
| 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. |
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| - 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 RGR |
| - 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 RGR |
| 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_219945 | chr10_84250836_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-18a-3p | chr10 | 84250835 | 84250842 | 8mer-1a | 84250820 | 84250842 | 144 | -16.6 |
| ADediting_219945 | chr10_84250836_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-4290 | chr10 | 84250833 | 84250840 | 8mer-1a | 84250822 | 84250840 | 140 | -17.36 |
| 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_219945 | chr10_84250836_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-4297 | chr10 | 84250833 | 84250840 | 8mer-1a | 84250825 | 84250840 | 142 | -14.62 |
| ADediting_219946 | chr10_84250890_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-367-5p | chr10 | 84250885 | 84250892 | 8mer-1a | 84250871 | 84250892 | 143 | -12.17 |
| ADediting_219946 | chr10_84250890_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-4652-3p | chr10 | 84250887 | 84250893 | 7mer-m8 | 84250874 | 84250894 | 148 | -13.88 |
| ADediting_219946 | chr10_84250890_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-4778-5p | chr10 | 84250888 | 84250894 | 7mer-m8 | 84250874 | 84250895 | 140 | -11.98 |
| ADediting_219946 | chr10_84250890_+ | ENSG00000148604.15 | ENST00000372092.3 | RGR-203 | hsa-miR-744-3p | chr10 | 84250884 | 84250890 | 7mer-m8 | 84250870 | 84250891 | 140 | -14.79 |
| 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_843620 | chr2_207754818_+ | ENSG00000148604.15 | ENST00000483744.6 | RGR-208 | hsa-miR-4775 | chr10 | 84255489 | 84255496 | 8mer-1a | 84255474 | 84255496 | 167 | -14.43 |
| 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 |
| Differentially expressed lncRNA-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for RGR |
| - 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. |
| ENST00000372092.3 | 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_219945 | ENST00000372092.3 | chr10_84250836_+ | 777 | -305.10 | -302.60 | -305.00 |
| ADediting_219946 | ENST00000372092.3 | chr10_84250890_+ | 831 | -301.80 | -302.60 | -305.00 |
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Relation with ADAR for RGR |
| 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.) |
| DLPFC | ADediting_219956 | chr10_84251565_+ | 0.27476430035136 | 0.0622215614328291 | 0.531379752221505 | -0.0356816219518729 | 1.16905181883311e-08 | 0.316869251914516 |
| 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.) |
| AC | 2.07971605810338e-12 | 0.42539002265759 | 0.00032384292215092 | 0.225588002544243 | 6.57517220995112e-33 | 0.662056664065097 |
| PCC | 0.00432413048050923 | 0.205610599654181 | 0.237260699820146 | 0.0859222648169801 | 3.25732931859249e-10 | 0.434857993891717 |
| FP | 0.0770788097483189 | 0.132857143708021 | 0.937009075662382 | -0.00596549521265313 | 7.00718037974894e-06 | 0.329659229553896 |
| IFG | 0.857888459951449 | 0.037731590438965 | 0.354514113150214 | 0.193315756866728 | 0.0128491099003797 | 0.490251820044817 |
| PG | 0.151310635338796 | 0.105630756656969 | 0.866240577454035 | -0.0124336414362814 | 6.81323298246087e-06 | 0.323196146481915 |
| STG | 0.698225066846048 | -0.0429271580706567 | 0.0303121912079822 | -0.236508547420541 | 0.00206911852546225 | 0.331480300817293 |
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Relation with AD stages for RGR |
| Correlation between AD stages and RNA editing frequency |
| Tissue | ADeditomID | position | P-val | Coeff. |
| TCX | ADediting_219964 | chr10_84251648_+ | 0.000395068368186265 | 0.337982794826456 |
| Correlation between AD stages and this gene's expression |
| Tissue | P-val | Coeff. |
| TCX | 1.00163441947239e-06 | 0.454277154857071 |
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RelatedDrugs for RGR |
| 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 RGR |
| Diseases associated with this gene. (DisGeNet 4.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| RGR | C0035334 | Retinitis Pigmentosa | 2 | CTD_human;ORPHANET |
| RGR | C3151068 | RETINITIS PIGMENTOSA 44 | 1 | CTD_human;UNIPROT |
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