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Center for Computational Systems Medicine
Soverview

Gene summary

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RNA A-to-I events

Soverview

Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples

Soverview

Protein coding region RNA A-to-I editings

Soverview

The effects of the RNA editing to the miRNA binding sites

Soverview

The effects of the RNA editing to the stability of the RNA structures

Soverview

Relation with ADAR

Soverview

Relation with cancer stages

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Relation with survival state

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene

Editing gene: TRMT13 (CAeditome ID:54482)

Gene summary for TRMT13

check button Gene summary
Gene informationGene symbol

TRMT13

Gene ID

54482

Gene nametRNA methyltransferase 13 homolog
SynonymsCCDC76
Cytomap

1p21.2

Type of geneprotein-coding
DescriptiontRNA:m(4)X modification enzyme TRM13 homologcoiled-coil domain containing 76coiled-coil domain-containing protein 76tRNA [Gm4] methyltransferasetRNA guanosine-2'-O-methyltransferase TRM13 homolog
Modification date20210529
UniProtAcc

Q9NUP7

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID

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RNA A-to-I events for TRMT13

check buttonRNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure.
all structure

check button RNA editing frequencies across 33 cancers of gene: ENSG00000122435.8
boxplot

check button RNA A-to-I editing events in Cancer.
CAediting_83614(100139987, +), CAediting_83615(100139988, +), CAediting_83616(100139989, +), CAediting_83617(100139992, +), CAediting_83618(100139997, +), CAediting_83619(100140014, +), CAediting_83620(100140019, +), CAediting_83621(100145606, +), CAediting_83622(100145610, +), CAediting_83623(100145628, +), CAediting_83624(100145635, +), CAediting_83625(100145648, +), CAediting_83626(100145653, +), CAediting_83627(100145671, +), CAediting_83628(100145685, +), CAediting_83629(100145698, +), CAediting_83630(100145701, +), CAediting_83631(100145709, +), CAediting_83632(100145721, +), CAediting_83633(100145737, +), CAediting_83634(100145750, +), CAediting_83635(100145756, +), CAediting_83636(100145760, +), CAediting_83637(100145764, +), CAediting_83638(100145780, +), CAediting_83639(100145786, +), CAediting_83640(100145796, +), CAediting_83641(100145805, +), CAediting_83642(100145812, +), CAediting_83643(100145816, +), CAediting_83644(100145817, +), CAediting_83645(100145825, +), CAediting_83646(100145828, +), CAediting_83647(100145836, +), CAediting_83648(100145853, +), CAediting_83649(100145855, +), CAediting_83650(100145858, +), CAediting_83651(100146531, +), CAediting_83652(100146549, +), CAediting_83653(100146556, +), CAediting_83654(100146569, +), CAediting_83655(100146570, +), CAediting_83656(100146605, +), CAediting_83657(100146606, +), CAediting_83658(100146610, +), CAediting_83659(100146623, +), CAediting_83660(100146633, +), CAediting_83661(100146642, +), CAediting_83662(100146645, +), CAediting_83663(100146647, +), CAediting_83664(100146649, +), CAediting_83665(100146658, +), CAediting_83666(100146715, +), CAediting_83667(100146735, +),

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RNA editing positional annotations for TRMT13 using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_83614chr1_100139987_+intronic
CAediting_83615chr1_100139988_+intronic
CAediting_83616chr1_100139989_+intronic
CAediting_83617chr1_100139992_+intronic
CAediting_83618chr1_100139997_+intronic
CAediting_83619chr1_100140014_+intronic
CAediting_83620chr1_100140019_+intronic
CAediting_83621chr1_100145606_+intronic
CAediting_83622chr1_100145610_+intronic
CAediting_83623chr1_100145628_+intronic
CAediting_83624chr1_100145635_+intronic
CAediting_83625chr1_100145648_+intronic
CAediting_83626chr1_100145653_+intronic
CAediting_83627chr1_100145671_+intronic
CAediting_83628chr1_100145685_+intronic
CAediting_83629chr1_100145698_+intronic
CAediting_83630chr1_100145701_+intronic
CAediting_83631chr1_100145709_+intronic
CAediting_83632chr1_100145721_+intronic
CAediting_83633chr1_100145737_+intronic
CAediting_83634chr1_100145750_+intronic
CAediting_83635chr1_100145756_+intronic
CAediting_83636chr1_100145760_+intronic
CAediting_83637chr1_100145764_+intronic
CAediting_83638chr1_100145780_+intronic
CAediting_83639chr1_100145786_+intronic
CAediting_83640chr1_100145796_+intronic
CAediting_83641chr1_100145805_+intronic
CAediting_83642chr1_100145812_+intronic
CAediting_83643chr1_100145816_+intronic
CAediting_83644chr1_100145817_+intronic
CAediting_83645chr1_100145825_+intronic
CAediting_83646chr1_100145828_+intronic
CAediting_83647chr1_100145836_+intronic
CAediting_83648chr1_100145853_+intronic
CAediting_83649chr1_100145855_+intronic
CAediting_83650chr1_100145858_+intronic
CAediting_83651chr1_100146531_+intronic
CAediting_83652chr1_100146549_+intronic
CAediting_83653chr1_100146556_+intronic
CAediting_83654chr1_100146569_+intronic
CAediting_83655chr1_100146570_+intronic
CAediting_83656chr1_100146605_+intronic
CAediting_83657chr1_100146606_+intronic
CAediting_83658chr1_100146610_+intronic
CAediting_83659chr1_100146623_+intronic
CAediting_83660chr1_100146633_+intronic
CAediting_83661chr1_100146642_+intronic
CAediting_83662chr1_100146645_+intronic
CAediting_83663chr1_100146647_+intronic
CAediting_83664chr1_100146649_+intronic
CAediting_83665chr1_100146658_+intronic
CAediting_83666chr1_100146715_+intronic
CAediting_83667chr1_100146735_+intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_83621chr1_100145606_+SINEAluAluJr
CAediting_83622chr1_100145610_+SINEAluAluJr
CAediting_83623chr1_100145628_+SINEAluAluJr
CAediting_83624chr1_100145635_+SINEAluAluJr
CAediting_83625chr1_100145648_+SINEAluAluJr
CAediting_83626chr1_100145653_+SINEAluAluJr
CAediting_83627chr1_100145671_+SINEAluAluJr
CAediting_83628chr1_100145685_+SINEAluAluJr
CAediting_83629chr1_100145698_+SINEAluAluJr
CAediting_83630chr1_100145701_+SINEAluAluJr
CAediting_83631chr1_100145709_+SINEAluAluJr
CAediting_83632chr1_100145721_+SINEAluAluJr
CAediting_83633chr1_100145737_+SINEAluAluJr
CAediting_83634chr1_100145750_+SINEAluAluJr
CAediting_83635chr1_100145756_+SINEAluAluJr
CAediting_83636chr1_100145760_+SINEAluAluJr
CAediting_83637chr1_100145764_+SINEAluAluJr
CAediting_83638chr1_100145780_+SINEAluAluJr
CAediting_83639chr1_100145786_+SINEAluAluJr
CAediting_83640chr1_100145796_+SINEAluAluJr
CAediting_83641chr1_100145805_+SINEAluAluJr
CAediting_83642chr1_100145812_+SINEAluAluJr
CAediting_83643chr1_100145816_+SINEAluAluJr
CAediting_83644chr1_100145817_+SINEAluAluJr
CAediting_83645chr1_100145825_+SINEAluAluJr
CAediting_83646chr1_100145828_+SINEAluAluJr
CAediting_83647chr1_100145836_+SINEAluAluJr
CAediting_83648chr1_100145853_+SINEAluAluJr
CAediting_83649chr1_100145855_+SINEAluAluJr
CAediting_83650chr1_100145858_+SINEAluAluJr
CAediting_83651chr1_100146531_+SINEAluAluSc8
CAediting_83652chr1_100146549_+SINEAluAluSc8
CAediting_83653chr1_100146556_+SINEAluAluSc8
CAediting_83654chr1_100146569_+SINEAluAluSc8
CAediting_83655chr1_100146570_+SINEAluAluSc8
CAediting_83656chr1_100146605_+SINEAluAluSc8
CAediting_83657chr1_100146606_+SINEAluAluSc8
CAediting_83658chr1_100146610_+SINEAluAluSc8
CAediting_83659chr1_100146623_+SINEAluAluSc8
CAediting_83660chr1_100146633_+SINEAluAluSc8
CAediting_83661chr1_100146642_+SINEAluAluSc8
CAediting_83662chr1_100146645_+SINEAluAluSc8
CAediting_83663chr1_100146647_+SINEAluAluSc8
CAediting_83664chr1_100146649_+SINEAluAluSc8
CAediting_83665chr1_100146658_+SINEAluAluSc8
CAediting_83666chr1_100146715_+SINEAluAluSc8
CAediting_83667chr1_100146735_+SINEAluAluSc8

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RNA A-to-I editing events in the alternative splicing sites for TRMT13

check button RNA A-to-I editing(s) in the alternative splicing sites.
AStypeCAeditomIDEditing positionAS positionAS directionExonic locationWildtype sequenceWildtype splicing strengthRNA edited sequenceRNA edited splicing strength

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000122435.8.TRMT13.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000122435.8.TRMT13.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for TRMT13

check button Differential gene expressions between RNA A-to-I edited and non-edited tumor samples.
* The grey color means N/A.
boxplot

check button Correlation between RNA A-to-I editing and gene expression.
boxplot

check button - 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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Protein coding region RNA A-to-I editings for TRMT13

check button- 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 TRMT13

**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.

check button RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA gained miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in lncRNA lost miRNA binding sites.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs lost binding to lncRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy
CAediting_393chr1_1167164_+ENSG00000122435.8ENST00000370143hsa-miR-200b-3p1001404461001404538mer-1a100140431100140453163-18.77
CAediting_1160181chr17_7017644_-ENSG00000122435.8ENST00000482437hsa-miR-195-3p1001408661001408738mer-1a100140852100140873150-11.95

check button RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.
CAeditom_IDPositionENSGENSTmiRNATargetscan startTargetscan endTargetscan scoreMiranda startMiranda endMiranda scoreMiranda energy

check button Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for TRMT13

check button - RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.
ENSTENST typeRNA structure without RNA A-to-I editing.RNA structure with RNA A-to-I editing.

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI

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Relation with ADAR for TRMT13

check button Correlation between ADAR gene expression and RNA editing frequency
CancerCAeditomIDpositionADAR1 (p-val)ADAR1 (coeff.)ADAR2 (p-val)ADAR2 (coeff.)ADAR3 (p-val)ADAR3 (coeff.)
BRCACAediting_83637chr1_100145764_+0.003476396949399480.2348533224431....
LAMLCAediting_83637chr1_100145764_+0.00455022046692280.263914158426007....
OVCAediting_83637chr1_100145764_+0.001316667047886490.371434715874226....
BRCACAediting_83645chr1_100145825_+8.13505208412413e-050.266046865789404....
LUADCAediting_83645chr1_100145825_+0.003017214319925580.338017337723211....
ESCACAediting_83645chr1_100145825_+....0.03570601860121430.265160939321816
SKCMCAediting_83645chr1_100145825_+7.97036299202944e-050.528519956117261....
LGGCAediting_83646chr1_100145828_+0.01070862431691730.258063539200871....
BRCACAediting_83646chr1_100145828_+2.3213770163868e-060.317104449146441....
STADCAediting_83646chr1_100145828_+0.024324766613220.209037476513818....
BRCACAediting_83662chr1_100146645_+0.03019554956249340.261162513305506....

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Relation with cancer stages for TRMT13

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.
BRCApathologic_stageCAediting_83637chr1_100145764_+0.0391136659760692-0.169783038750187
ESCApathologic_stageCAediting_83637chr1_100145764_+0.003134514090516310.345852830864214
ESCApathologic_stageCAediting_83646chr1_100145828_+0.01434164764712230.291524217427433
STADpathologic_stageCAediting_83633chr1_100145737_+0.0386583087709233-0.267690448694222

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Relation with survival for TRMT13

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for TRMT13

check button Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)
GeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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RelatedDiseases for TRMT13

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource