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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 PHF10 |
 Gene summary |
| Gene information | Gene symbol | PHF10 | Gene ID | 55274 |
| Gene name | PHD finger protein 10 | |
| Synonyms | BAF45A|XAP135 | |
| Cytomap | 6q27 | |
| Type of gene | protein-coding | |
| Description | PHD finger protein 10BRG1-associated factor 45aBRG1-associated factor, 45-KD, APHD zinc finger protein XAP135 | |
| Modification date | 20200313 | |
| UniProtAcc | Q8WUB8, | |
| 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 PHF10 |
| 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. |
| 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_1249612(169716811, -), ADediting_1249613(169716830, -), ADediting_1249614(169716847, -), ADediting_1249615(169717084, -), ADediting_1249616(169717086, -), ADediting_1249617(169717197, -), ADediting_1583145(169717072, -), ADediting_1583146(169717140, -), ADediting_1583147(169717186, -), |
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RNA editing positional annotations for PHF10 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_1249612 | chr6_169716811_- | intronic |
| ADediting_1249613 | chr6_169716830_- | intronic |
| ADediting_1249614 | chr6_169716847_- | intronic |
| ADediting_1249615 | chr6_169717084_- | intronic |
| ADediting_1249616 | chr6_169717086_- | intronic |
| ADediting_1249617 | chr6_169717197_- | intronic |
| ADediting_1583145 | chr6_169717072_- | intronic |
| ADediting_1583146 | chr6_169717140_- | intronic |
| ADediting_1583147 | chr6_169717186_- | intronic |
| Repat-regional RNA editing(s). |
| ADeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| ADediting_1249612 | chr6_169716811_- | SINE | Alu | Name=FAM |
| ADediting_1249613 | chr6_169716830_- | SINE | Alu | Name=FAM |
| ADediting_1249614 | chr6_169716847_- | SINE | Alu | Name=FAM |
| ADediting_1249615 | chr6_169717084_- | SINE | Alu | Name=AluSg |
| ADediting_1249616 | chr6_169717086_- | SINE | Alu | Name=AluSg |
| ADediting_1249617 | chr6_169717197_- | SINE | Alu | Name=AluSg |
| ADediting_1583145 | chr6_169717072_- | SINE | Alu | Name=AluSg |
| ADediting_1583146 | chr6_169717140_- | SINE | Alu | Name=AluSg |
| ADediting_1583147 | chr6_169717186_- | SINE | Alu | Name=AluSg |
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RNA A-to-I editing events in the alternative splicing sites for PHF10 |
| 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 |
| ES | ADediting_1583146 | chr6_169717140_- | 169717134:169717142 | 5ss | 1e | GTAGCTGGT | -12.85 | GTGGCTGGT | -5.31 |
| ES | ADediting_1583146 | chr6_169717140_- | 169717134:169717142 | 5ss | 1e | GTAGCTGGT | -12.85 | GTGGCTGGT | -5.31 |
| 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 PHF10 |
| 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 |
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Protein coding region RNA A-to-I editings for PHF10 |
| - 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 PHF10 |
| 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 |
| 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 |
| ADediting_1535951 | chr14_100874558_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-337-3p | chr6 | 169707184 | 169707190 | 7mer-m8 | 169707183 | 169707205 | 163 | -19.01 |
| ADediting_1535954 | chr14_101045974_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-381-3p | chr6 | 169707408 | 169707414 | 7mer-1a | 169707408 | 169707429 | 148 | -23.15 |
| ADediting_286380 | chr11_79422188_- | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-5579-3p | chr6 | 169707042 | 169707049 | 8mer-1a | 169707042 | 169707063 | 140 | -11.41 |
| ADediting_286380 | chr11_79422188_- | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-5579-3p | chr6 | 169707968 | 169707974 | 7mer-m8 | 169707967 | 169707987 | 159 | -20.73 |
| 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_1535951 | chr14_100874558_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-337-3p | chr6 | 169707319 | 169707326 | 8mer-1a | 169707319 | 169707340 | 141 | -8.53 |
| ADediting_1535953 | chr14_101045971_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-381-3p | chr6 | 169707895 | 169707901 | 7mer-1a | 169707895 | 169707917 | 145 | -20.87 |
| ADediting_1535953 | chr14_101045971_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-381-3p | chr6 | 169709270 | 169709276 | 7mer-m8 | 169709269 | 169709290 | 145 | -12.83 |
| ADediting_1535954 | chr14_101045974_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-381-3p | chr6 | 169707895 | 169707901 | 7mer-1a | 169707895 | 169707917 | 145 | -20.87 |
| ADediting_1535954 | chr14_101045974_+ | ENSG00000130024.15 | ENST00000612128.1 | PHF10-205 | hsa-miR-381-3p | chr6 | 169709270 | 169709276 | 7mer-m8 | 169709269 | 169709290 | 145 | -12.83 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for PHF10 |
| - 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. |
| 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 |
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Relation with ADAR for PHF10 |
| 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 | 8.21815859278198e-17 | 0.449351497321303 | 9.47977608914371e-11 | 0.357009256404877 | 0.0408708119331216 | 0.116214683691898 |
| AC | 3.64612268922407e-51 | 0.774154598895842 | 2.37504033620005e-32 | 0.657648351889538 | 5.36634829009111e-20 | 0.536024021102922 |
| PCC | 9.99418314875154e-09 | 0.399862888945884 | 3.9973594788972e-08 | 0.384459390276465 | 0.000152358956300123 | 0.270675261802652 |
| CER | 6.12798694119746e-30 | 0.763831226059789 | 1.79342790333212e-30 | 0.76828794335325 | 1.06835164785473e-06 | 0.386016511075541 |
| TCX | 3.03219167512883e-08 | 0.43338155200448 | 0.347784261725603 | -0.0771918059521607 | 1.00621868317612e-17 | 0.626416281382847 |
| FP | 3.5670046490197e-13 | 0.509985671294471 | 4.30513842104749e-10 | 0.446220359025386 | 1.25015271097098e-11 | 0.479667806884332 |
| IFG | 0.000224267033110258 | 0.673469721559002 | 0.000935659896320866 | 0.62048912332406 | 0.000679658654572067 | 0.633229185932501 |
| PG | 3.22886606744029e-32 | 0.729842557063132 | 1.86977392609872e-15 | 0.539754886421969 | 0.343969305851136 | 0.0697756254376048 |
| STG | 1.02893138968936e-09 | 0.605748605563301 | 5.16170108397722e-08 | 0.552235485039702 | 0.000161488015182741 | 0.400282711361976 |
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Relation with AD stages for PHF10 |
| 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 | 3.04268764541076e-08 | 0.502307097431408 |
| TCX | 4.54982966391334e-09 | 0.531558645828978 |
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RelatedDrugs for PHF10 |
| 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 PHF10 |
| 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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