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Center for Computational Systems Medicine
Soverview

Gene summary

Soverview

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

Soverview

Relation with survival state

Soverview

Related drugs with this gene

Soverview

Related diseases with this gene

Editing gene: TRAF1 (CAeditome ID:7185)

Gene summary for TRAF1

check button Gene summary
Gene informationGene symbol

TRAF1

Gene ID

7185

Gene nameTNF receptor associated factor 1
SynonymsEBI6|MGC:10353
Cytomap

9q33.2

Type of geneprotein-coding
DescriptionTNF receptor-associated factor 1Epstein-Bar virus-induced protein 6
Modification date20210518
UniProtAcc

Q13077

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
TRAF1

GO:0051092

TNF receptor-associated factor 1

10692572

TRAF1

GO:2001236

TNF receptor-associated factor 1

10692572


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RNA A-to-I events for TRAF1

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: ENSG00000056558.9
boxplot

check button RNA A-to-I editing events in Cancer.
CAediting_705128(120902826, -), CAediting_705129(120910663, -), CAediting_705130(120910669, -), CAediting_705131(120910672, -), CAediting_705132(120915726, -), CAediting_705133(120915782, -), CAediting_705134(120918188, -), CAediting_705135(120922950, -), CAediting_705136(120923112, -), CAediting_705137(120927370, -), CAediting_705138(120927399, -), CAediting_705139(120927400, -), CAediting_705140(120927404, -), CAediting_705141(120927429, -), CAediting_705142(120927431, -), CAediting_705143(120927453, -), CAediting_705144(120927454, -), CAediting_705145(120927455, -), CAediting_705146(120927476, -), CAediting_705147(120928141, -), CAediting_705148(120928157, -), CAediting_705149(120928173, -), CAediting_705150(120928181, -), CAediting_705151(120928182, -), CAediting_705152(120928193, -), CAediting_705153(120928200, -),

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RNA editing positional annotations for TRAF1 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_705128chr9_120902826_-UTR3
CAediting_705129chr9_120910663_-intronic
CAediting_705130chr9_120910669_-intronic
CAediting_705131chr9_120910672_-intronic
CAediting_705132chr9_120915726_-intronic
CAediting_705133chr9_120915782_-intronic
CAediting_705134chr9_120918188_-intronic
CAediting_705135chr9_120922950_-intronic
CAediting_705136chr9_120923112_-intronic
CAediting_705137chr9_120927370_-UTR5
CAediting_705138chr9_120927399_-UTR5
CAediting_705139chr9_120927400_-UTR5
CAediting_705140chr9_120927404_-UTR5
CAediting_705141chr9_120927429_-UTR5
CAediting_705142chr9_120927431_-UTR5
CAediting_705143chr9_120927453_-UTR5
CAediting_705144chr9_120927454_-UTR5
CAediting_705145chr9_120927455_-UTR5
CAediting_705146chr9_120927476_-UTR5
CAediting_705147chr9_120928141_-UTR5
CAediting_705148chr9_120928157_-UTR5
CAediting_705149chr9_120928173_-UTR5
CAediting_705150chr9_120928181_-UTR5
CAediting_705151chr9_120928182_-UTR5
CAediting_705152chr9_120928193_-UTR5
CAediting_705153chr9_120928200_-UTR5

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_705128chr9_120902826_-LINEL2L2b
CAediting_705129chr9_120910663_-SINEAluAluJr
CAediting_705130chr9_120910669_-SINEAluAluJr
CAediting_705131chr9_120910672_-SINEAluAluJr
CAediting_705132chr9_120915726_-SINEAluAluJr
CAediting_705133chr9_120915782_-SINEAluAluJr
CAediting_705134chr9_120918188_-LTRERVL-MaLRMLT1B
CAediting_705135chr9_120922950_-SINEAluAluJb
CAediting_705136chr9_120923112_-SINEAluAluJb
CAediting_705137chr9_120927370_-SINEMIRMIRb
CAediting_705138chr9_120927399_-SINEMIRMIRb
CAediting_705139chr9_120927400_-SINEMIRMIRb
CAediting_705140chr9_120927404_-SINEMIRMIRb
CAediting_705141chr9_120927429_-SINEMIRMIRb
CAediting_705142chr9_120927431_-SINEMIRMIRb
CAediting_705143chr9_120927453_-SINEMIRMIRb
CAediting_705144chr9_120927454_-SINEMIRMIRb
CAediting_705145chr9_120927455_-SINEMIRMIRb
CAediting_705146chr9_120927476_-SINEMIRMIRb
CAediting_705147chr9_120928141_-SINEMIRMIR
CAediting_705148chr9_120928157_-SINEMIRMIR
CAediting_705149chr9_120928173_-SINEMIRMIR
CAediting_705150chr9_120928181_-SINEMIRMIR
CAediting_705151chr9_120928182_-SINEMIRMIR
CAediting_705152chr9_120928193_-SINEMIRMIR
CAediting_705153chr9_120928200_-SINEMIRMIR

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RNA A-to-I editing events in the alternative splicing sites for TRAF1

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 ENSG00000056558.9.TRAF1.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000056558.9.TRAF1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for TRAF1

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 TRAF1

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 TRAF1

**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
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000546084hsa-miR-12001209028231209028308mer-1a120902823120902845150.00-17.57
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000373887hsa-miR-12001209028231209028308mer-1a120902823120902845150.00-17.57
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000540010hsa-miR-12001209028231209028308mer-1a120902823120902845150.00-17.57

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
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000546084hsa-miR-526b-5p1209028231209028308mer-1a120902823120902849147-16.16
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000546084hsa-miR-80811209028261209028327mer-m8120902825120902851149-19.4
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000373887hsa-miR-526b-5p1209028231209028308mer-1a120902823120902849147-16.16
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000373887hsa-miR-80811209028261209028327mer-m8120902825120902851149-19.4
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000540010hsa-miR-526b-5p1209028231209028308mer-1a120902823120902849147-16.16
CAediting_705128chr9_120902826_-ENSG00000056558.9ENST00000540010hsa-miR-80811209028261209028327mer-m8120902825120902851149-19.4

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_748296chr10_51299626_+ENSG00000056558.9ENST00000546084hsa-miR-605-3p1209033241209033307mer-m8120903323120903345142-19.15
CAediting_748296chr10_51299626_+ENSG00000056558.9ENST00000373887hsa-miR-605-3p1209033241209033307mer-m8120903323120903345142-19.15
CAediting_748296chr10_51299626_+ENSG00000056558.9ENST00000540010hsa-miR-605-3p1209033241209033307mer-m8120903323120903345142-19.15
CAediting_1054808chr15_66496985_-ENSG00000056558.9ENST00000546084hsa-miR-45121209040961209041038mer-1a120904096120904117147-18.32
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000546084hsa-miR-320e1209033161209033227mer-m8120903315120903332144-19.86
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000546084hsa-miR-320e1209043441209043507mer-m8120904343120904360151-23
CAediting_117844chr1_162342605_+ENSG00000056558.9ENST00000546084hsa-miR-556-3p1209037071209037137mer-m8120903706120903726150-15.8
CAediting_77128chr1_85133844_+ENSG00000056558.9ENST00000546084hsa-miR-4423-3p1209025261209025327mer-m8120902525120902545140-13.47
CAediting_228905chr2_188297554_+ENSG00000056558.9ENST00000546084hsa-miR-561-3p1209028181209028247mer-m8120902817120902839142-12.56
CAediting_396018chr5_1062918_-ENSG00000056558.9ENST00000546084hsa-miR-46351209041391209041468mer-1a120904139120904159145-15.5
CAediting_1054808chr15_66496985_-ENSG00000056558.9ENST00000373887hsa-miR-45121209040961209041038mer-1a120904096120904117147-18.32
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000373887hsa-miR-320e1209033161209033227mer-m8120903315120903332144-19.86
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000373887hsa-miR-320e1209043441209043507mer-m8120904343120904360151-23
CAediting_117844chr1_162342605_+ENSG00000056558.9ENST00000373887hsa-miR-556-3p1209037071209037137mer-m8120903706120903726150-15.8
CAediting_77128chr1_85133844_+ENSG00000056558.9ENST00000373887hsa-miR-4423-3p1209025261209025327mer-m8120902525120902545140-13.47
CAediting_228905chr2_188297554_+ENSG00000056558.9ENST00000373887hsa-miR-561-3p1209028181209028247mer-m8120902817120902839142-12.56
CAediting_396018chr5_1062918_-ENSG00000056558.9ENST00000373887hsa-miR-46351209041391209041468mer-1a120904139120904159145-15.5
CAediting_1054808chr15_66496985_-ENSG00000056558.9ENST00000540010hsa-miR-45121209040961209041038mer-1a120904096120904117147-18.32
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000540010hsa-miR-320e1209033161209033227mer-m8120903315120903332144-19.86
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000540010hsa-miR-320e1209043441209043507mer-m8120904343120904360151-23
CAediting_117844chr1_162342605_+ENSG00000056558.9ENST00000540010hsa-miR-556-3p1209037071209037137mer-m8120903706120903726150-15.8
CAediting_77128chr1_85133844_+ENSG00000056558.9ENST00000540010hsa-miR-4423-3p1209025261209025327mer-m8120902525120902545140-13.47
CAediting_228905chr2_188297554_+ENSG00000056558.9ENST00000540010hsa-miR-561-3p1209028181209028247mer-m8120902817120902839142-12.56
CAediting_396018chr5_1062918_-ENSG00000056558.9ENST00000540010hsa-miR-46351209041391209041468mer-1a120904139120904159145-15.5

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
CAediting_846604chr11_93733708_-ENSG00000056558.9ENST00000546084hsa-miR-1304-3p1209047531209047597mer-m8120904752120904771152-19.77
CAediting_1306324chr19_13836464_-ENSG00000056558.9ENST00000546084hsa-miR-27a-3p1209049611209049677mer-m8120904960120904984152-23.87
CAediting_1306323chr19_13836462_-ENSG00000056558.9ENST00000546084hsa-miR-27a-3p1209049611209049677mer-m8120904960120904984152-23.87
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000546084hsa-miR-320e1209037831209037897mer-m8120903782120903799154-15.66
CAediting_1054808chr15_66496985_-ENSG00000056558.9ENST00000546084hsa-miR-45121209030871209030937mer-m8120903086120903107152-25.55
CAediting_1399425chr20_1392958_-ENSG00000056558.9ENST00000546084hsa-miR-6869-5p1209030471209030537mer-m8120903046120903068149-21.5
CAediting_846604chr11_93733708_-ENSG00000056558.9ENST00000373887hsa-miR-1304-3p1209047531209047597mer-m8120904752120904771152-19.77
CAediting_1306324chr19_13836464_-ENSG00000056558.9ENST00000373887hsa-miR-27a-3p1209049611209049677mer-m8120904960120904984152-23.87
CAediting_1306323chr19_13836462_-ENSG00000056558.9ENST00000373887hsa-miR-27a-3p1209049611209049677mer-m8120904960120904984152-23.87
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000373887hsa-miR-320e1209037831209037897mer-m8120903782120903799154-15.66
CAediting_1054808chr15_66496985_-ENSG00000056558.9ENST00000373887hsa-miR-45121209030871209030937mer-m8120903086120903107152-25.55
CAediting_1399425chr20_1392958_-ENSG00000056558.9ENST00000373887hsa-miR-6869-5p1209030471209030537mer-m8120903046120903068149-21.5
CAediting_846604chr11_93733708_-ENSG00000056558.9ENST00000540010hsa-miR-1304-3p1209047531209047597mer-m8120904752120904771152-19.77
CAediting_1306324chr19_13836464_-ENSG00000056558.9ENST00000540010hsa-miR-27a-3p1209049611209049677mer-m8120904960120904984152-23.87
CAediting_1306323chr19_13836462_-ENSG00000056558.9ENST00000540010hsa-miR-27a-3p1209049611209049677mer-m8120904960120904984152-23.87
CAediting_1368054chr19_46709310_-ENSG00000056558.9ENST00000540010hsa-miR-320e1209037831209037897mer-m8120903782120903799154-15.66
CAediting_1054808chr15_66496985_-ENSG00000056558.9ENST00000540010hsa-miR-45121209030871209030937mer-m8120903086120903107152-25.55
CAediting_1399425chr20_1392958_-ENSG00000056558.9ENST00000540010hsa-miR-6869-5p1209030471209030537mer-m8120903046120903068149-21.5

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 TRAF1

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 TRAF1

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_705140chr9_120927404_-0.0139953108428980.173964859990785....
KIRPCAediting_705140chr9_120927404_-0.02079524969545450.277865301702532..0.04756084889815350.239409792672329
SKCMCAediting_705140chr9_120927404_-..1.03589534347529e-050.433290520481319..
BRCACAediting_705142chr9_120927431_-0.002871706825663620.351213482292098....
KIRCCAediting_705149chr9_120928173_-..0.0117008482542140.232365658101179..
KIRPCAediting_705149chr9_120928173_-..1.60207058199264e-100.670415858727415..
SKCMCAediting_705149chr9_120928173_-..8.45693509668388e-060.517872047450933..

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Relation with cancer stages for TRAF1

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.
BRCApathologic_stageCAediting_705140chr9_120927404_-0.03420164746233940.15213802069638

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Relation with survival for TRAF1

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for TRAF1

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 TRAF1

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource
TRAF1C0003873Rheumatoid Arthritis2CTD_human
TRAF1C0000786Spontaneous abortion1CTD_human
TRAF1C0000822Abortion, Tubal1CTD_human
TRAF1C0013274Patent ductus arteriosus1CTD_human
TRAF1C0033578Prostatic Neoplasms1CTD_human
TRAF1C0376358Malignant neoplasm of prostate1CTD_human
TRAF1C2936170Patent Ductus Arteriosus Familial1CTD_human
TRAF1C3830362Early Pregnancy Loss1CTD_human
TRAF1C4552766Miscarriage1CTD_human