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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: SLC25A23 (CAeditome ID:79085)

Gene summary for SLC25A23

check button Gene summary
Gene informationGene symbol

SLC25A23

Gene ID

79085

Gene namesolute carrier family 25 member 23
SynonymsAPC2|MCSC2|SCaMC-3
Cytomap

19p13.3

Type of geneprotein-coding
Descriptioncalcium-binding mitochondrial carrier protein SCaMC-3mitochondrial ATP-Mg/Pi carrier protein 2mitochondrial Ca(2+)-dependent solute carrier protein 2mitochondrial Ca2+-dependent solute carrier protein 2short calcium-binding mitochondrial carrier 3sma
Modification date20210518
UniProtAcc

Q9BV35

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
SLC25A23

GO:0005739

Calcium-binding mitochondrial carrier protein SCaMC-3

0000052


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RNA A-to-I events for SLC25A23

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: ENSG00000125648.13
boxplot

check button RNA A-to-I editing events in Cancer.
CAediting_1280927(6436678, -), CAediting_1280928(6436941, -), CAediting_1280929(6436945, -), CAediting_1280930(6436946, -), CAediting_1280931(6438233, -), CAediting_1280932(6438234, -), CAediting_1280933(6438308, -), CAediting_1280934(6438450, -), CAediting_1280935(6438464, -), CAediting_1280936(6438472, -), CAediting_1280937(6438490, -), CAediting_1280938(6438503, -), CAediting_1280939(6438525, -), CAediting_1280940(6438727, -), CAediting_1280941(6438749, -), CAediting_1280942(6438767, -), CAediting_1280943(6438773, -), CAediting_1280944(6438786, -), CAediting_1280945(6438813, -), CAediting_1280946(6441793, -), CAediting_1280947(6441851, -), CAediting_1280948(6447556, -), CAediting_1280949(6449381, -), CAediting_1280950(6449969, -), CAediting_1280951(6449982, -), CAediting_1280952(6449996, -), CAediting_1280953(6449998, -), CAediting_1280954(6450027, -), CAediting_1280955(6450077, -), CAediting_1280956(6450133, -), CAediting_1280957(6450829, -), CAediting_1280958(6450835, -), CAediting_1280959(6450877, -), CAediting_1280960(6451133, -), CAediting_1280961(6451869, -), CAediting_1280962(6451926, -), CAediting_1280963(6451930, -), CAediting_1280964(6451947, -), CAediting_1280965(6451955, -), CAediting_1280966(6451973, -), CAediting_1280967(6452015, -), CAediting_1280968(6452019, -), CAediting_1280969(6452023, -), CAediting_1280970(6452027, -), CAediting_1280971(6452029, -), CAediting_1280972(6452770, -), CAediting_1280973(6453351, -), CAediting_1280974(6455121, -), CAediting_1280975(6455238, -), CAediting_1280976(6455834, -), CAediting_1280977(6455983, -), CAediting_1280978(6455986, -), CAediting_1280979(6455991, -), CAediting_1280980(6455993, -), CAediting_1280981(6455998, -), CAediting_1280982(6456000, -),

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RNA editing positional annotations for SLC25A23 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_1280927chr19_6436678_-ncRNA_intronic
CAediting_1280928chr19_6436941_-ncRNA_intronic
CAediting_1280929chr19_6436945_-ncRNA_intronic
CAediting_1280930chr19_6436946_-ncRNA_intronic
CAediting_1280931chr19_6438233_-ncRNA_intronic
CAediting_1280932chr19_6438234_-ncRNA_intronic
CAediting_1280933chr19_6438308_-exonic
CAediting_1280934chr19_6438450_-exonic
CAediting_1280935chr19_6438464_-exonic
CAediting_1280936chr19_6438472_-exonic
CAediting_1280937chr19_6438490_-exonic
CAediting_1280938chr19_6438503_-exonic
CAediting_1280939chr19_6438525_-exonic
CAediting_1280940chr19_6438727_-exonic
CAediting_1280941chr19_6438749_-exonic
CAediting_1280942chr19_6438767_-exonic
CAediting_1280943chr19_6438773_-exonic;splicing
CAediting_1280944chr19_6438786_-exonic
CAediting_1280945chr19_6438813_-exonic
CAediting_1280946chr19_6441793_-ncRNA_intronic
CAediting_1280947chr19_6441851_-ncRNA_intronic
CAediting_1280948chr19_6447556_-ncRNA_intronic
CAediting_1280949chr19_6449381_-ncRNA_intronic
CAediting_1280950chr19_6449969_-ncRNA_intronic
CAediting_1280951chr19_6449982_-ncRNA_intronic
CAediting_1280952chr19_6449996_-ncRNA_intronic
CAediting_1280953chr19_6449998_-ncRNA_intronic
CAediting_1280954chr19_6450027_-ncRNA_intronic
CAediting_1280955chr19_6450077_-ncRNA_intronic
CAediting_1280956chr19_6450133_-ncRNA_intronic
CAediting_1280957chr19_6450829_-ncRNA_intronic
CAediting_1280958chr19_6450835_-ncRNA_intronic
CAediting_1280959chr19_6450877_-ncRNA_intronic
CAediting_1280960chr19_6451133_-ncRNA_intronic
CAediting_1280961chr19_6451869_-ncRNA_intronic
CAediting_1280962chr19_6451926_-ncRNA_intronic
CAediting_1280963chr19_6451930_-ncRNA_intronic
CAediting_1280964chr19_6451947_-ncRNA_intronic
CAediting_1280965chr19_6451955_-ncRNA_intronic
CAediting_1280966chr19_6451973_-ncRNA_intronic
CAediting_1280967chr19_6452015_-ncRNA_intronic
CAediting_1280968chr19_6452019_-ncRNA_intronic
CAediting_1280969chr19_6452023_-ncRNA_intronic
CAediting_1280970chr19_6452027_-ncRNA_intronic
CAediting_1280971chr19_6452029_-ncRNA_intronic
CAediting_1280972chr19_6452770_-intronic
CAediting_1280973chr19_6453351_-intronic
CAediting_1280974chr19_6455121_-intronic
CAediting_1280975chr19_6455238_-intronic
CAediting_1280976chr19_6455834_-intronic
CAediting_1280977chr19_6455983_-exonic
CAediting_1280978chr19_6455986_-exonic
CAediting_1280979chr19_6455991_-exonic
CAediting_1280980chr19_6455993_-exonic
CAediting_1280981chr19_6455998_-exonic
CAediting_1280982chr19_6456000_-exonic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_1280927chr19_6436678_-SINEAluAluSq
CAediting_1280928chr19_6436941_-SINEAluAluSz
CAediting_1280929chr19_6436945_-SINEAluAluSz
CAediting_1280930chr19_6436946_-SINEAluAluSz
CAediting_1280931chr19_6438233_-SINEAluAluSz
CAediting_1280932chr19_6438234_-SINEAluAluSz
CAediting_1280933chr19_6438308_-SINEAluAluSz
CAediting_1280934chr19_6438450_-SINEAluAluSz
CAediting_1280935chr19_6438464_-SINEAluAluSz
CAediting_1280936chr19_6438472_-SINEAluAluSz
CAediting_1280937chr19_6438490_-SINEAluAluSz
CAediting_1280938chr19_6438503_-SINEAluAluSz
CAediting_1280939chr19_6438525_-SINEAluAluSz
CAediting_1280940chr19_6438727_-SINEAluAluSq
CAediting_1280941chr19_6438749_-SINEAluAluSq
CAediting_1280942chr19_6438767_-SINEAluAluSq
CAediting_1280943chr19_6438773_-SINEAluAluSq
CAediting_1280944chr19_6438786_-SINEAluAluSq
CAediting_1280945chr19_6438813_-SINEAluAluSq
CAediting_1280948chr19_6447556_-SINEAluAluSx
CAediting_1280949chr19_6449381_-SINEAluAluJr
CAediting_1280950chr19_6449969_-SINEAluAluSx1
CAediting_1280951chr19_6449982_-SINEAluAluSx1
CAediting_1280952chr19_6449996_-SINEAluAluSx1
CAediting_1280953chr19_6449998_-SINEAluAluSx1
CAediting_1280954chr19_6450027_-SINEAluAluSx1
CAediting_1280955chr19_6450077_-SINEAluAluSx1
CAediting_1280956chr19_6450133_-SINEAluAluSx1
CAediting_1280957chr19_6450829_-SINEAluAluSx1
CAediting_1280958chr19_6450835_-SINEAluAluSx1
CAediting_1280959chr19_6450877_-SINEAluAluSx1
CAediting_1280960chr19_6451133_-SINEAluAluSz
CAediting_1280961chr19_6451869_-SINEAluAluSx
CAediting_1280962chr19_6451926_-SINEAluAluSx
CAediting_1280963chr19_6451930_-SINEAluAluSx
CAediting_1280964chr19_6451947_-SINEAluAluSx
CAediting_1280965chr19_6451955_-SINEAluAluSx
CAediting_1280966chr19_6451973_-SINEAluAluSx
CAediting_1280967chr19_6452015_-SINEAluAluSx
CAediting_1280968chr19_6452019_-SINEAluAluSx
CAediting_1280969chr19_6452023_-SINEAluAluSx
CAediting_1280970chr19_6452027_-SINEAluAluSx
CAediting_1280971chr19_6452029_-SINEAluAluSx
CAediting_1280972chr19_6452770_-SINEAluAluJo
CAediting_1280973chr19_6453351_-SINEAluAluSx1
CAediting_1280974chr19_6455121_-SINEAluAluJr
CAediting_1280975chr19_6455238_-SINEAluAluJr
CAediting_1280976chr19_6455834_-SINEAluAluY
CAediting_1280977chr19_6455983_-SINEAluAluY
CAediting_1280978chr19_6455986_-SINEAluAluY
CAediting_1280979chr19_6455991_-SINEAluAluY
CAediting_1280980chr19_6455993_-SINEAluAluY
CAediting_1280981chr19_6455998_-SINEAluAluY
CAediting_1280982chr19_6456000_-SINEAluAluY

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RNA A-to-I editing events in the alternative splicing sites for SLC25A23

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
ESCAediting_1280933chr19_6438308_-6438286:64383083SS0+20iAGTTTCGCTCTGTTTCCCAGGCT6.79GGTTTCGCTCTGTTTCCCAGGCT6.94
MEX_1CAediting_1280933chr19_6438308_-6438286:64383083SS0+20iAGTTTCGCTCTGTTTCCCAGGCT6.79GGTTTCGCTCTGTTTCCCAGGCT6.94
ESCAediting_1280943chr19_6438773_-6438769:64387913SS0+2iCTGCAACCTCTGCCTTCCAGGTT7.73CTGCAACCTCTGCCTTCCGGGTT-0.23
MEX_2CAediting_1280943chr19_6438773_-6438769:64387913SS0+2iCTGCAACCTCTGCCTTCCAGGTT7.73CTGCAACCTCTGCCTTCCGGGTT-0.23
ESCAediting_1280944chr19_6438786_-6438769:64387913SS0+15iCTGCAACCTCTGCCTTCCAGGTT7.73CTGCAGCCTCTGCCTTCCAGGTT7.01
MEX_2CAediting_1280944chr19_6438786_-6438769:64387913SS0+15iCTGCAACCTCTGCCTTCCAGGTT7.73CTGCAGCCTCTGCCTTCCAGGTT7.01

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000125648.13.SLC25A23.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000125648.13.SLC25A23.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for SLC25A23

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.
GBM.CAediting_1280979.ENSG00000125648.SLC25A23.png
Soverview

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Protein coding region RNA A-to-I editings for SLC25A23

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 SLC25A23

**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_1280931chr19_6438233_-ENSG00000125648.13ENST00000598704hsa-miR-3622a-3p643822964382368mer-1a64382296438250148.00-19.42
CAediting_1280931chr19_6438233_-ENSG00000125648.13ENST00000598704hsa-miR-3622b-3p643822964382368mer-1a64382296438249152.00-23.04
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-6771-5p643846364384697mer-m864384626438483149.00-25.86
CAediting_1280937chr19_6438490_-ENSG00000125648.13ENST00000264088hsa-miR-3938643848564384917mer-m864384846438505140.00-16.92
CAediting_1280937chr19_6438490_-ENSG00000125648.13ENST00000264088hsa-miR-4732-3p643848764384948mer-1a64384876438507159.00-23.66
CAediting_1280937chr19_6438490_-ENSG00000125648.13ENST00000264088hsa-miR-4750-3p643849064384967mer-m864384896438511141.00-20.19
CAediting_1280937chr19_6438490_-ENSG00000125648.13ENST00000264088hsa-miR-670-5p643848664384938mer-1a64384866438505149.00-21.14

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_1280931chr19_6438233_-ENSG00000125648.13ENST00000598704hsa-miR-3614-5p643822964382357mer-1a64382296438252147-21.17
CAediting_1280932chr19_6438234_-ENSG00000125648.13ENST00000598704hsa-miR-3614-5p643822964382357mer-1a64382296438252147-21.17
CAediting_1280937chr19_6438490_-ENSG00000125648.13ENST00000264088hsa-miR-10397-5p643848764384948mer-1a64384876438508154-23.83
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-30b-3p643846364384708mer-1a64384636438485155-18.01
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-3689a-3p643846364384708mer-1a64384636438483147-20.83
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-3689b-3p643846364384708mer-1a64384636438483147-20.41
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-3689c643846364384708mer-1a64384636438483147-20.41
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-4425643846264384687mer-m864384616438482153-17.31
CAediting_1280936chr19_6438472_-ENSG00000125648.13ENST00000264088hsa-miR-6126643847264384787mer-m864384716438487154-21.16
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-6779-5p643846364384708mer-1a64384636438483147-24.59
CAediting_1280936chr19_6438472_-ENSG00000125648.13ENST00000264088hsa-miR-6884-5p643846764384737mer-m864384666438486153-21.66
CAediting_1280935chr19_6438464_-ENSG00000125648.13ENST00000264088hsa-miR-887-5p643846364384697mer-m864384626438481143-15.28
CAediting_1280947chr19_6441851_-ENSG00000125648.13ENST00000301454hsa-miR-8078644184864418547mer-m864418476441869145-19.44
CAediting_1280946chr19_6441793_-ENSG00000125648.13ENST00000301454hsa-miR-8078644179064417967mer-m864417896441811145-19.46
CAediting_1280947chr19_6441851_-ENSG00000125648.13ENST00000600682hsa-miR-8078644184864418547mer-m864418476441869145-19.44
CAediting_1280946chr19_6441793_-ENSG00000125648.13ENST00000600682hsa-miR-8078644179064417967mer-m864417896441811145-19.46

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_688081chr9_63819627_+ENSG00000125648.13ENST00000301454hsa-miR-4477b644039064403978mer-1a64403906440412143-11.35
CAediting_580943chr7_100356700_+ENSG00000125648.13ENST00000598704hsa-miR-6840-3p643823864382447mer-m864382376438258140-27.74
CAediting_1054808chr15_66496985_-ENSG00000125648.13ENST00000301454hsa-miR-4512644085164408588mer-1a64408516440872150-15.25
CAediting_86358chr1_109598906_+ENSG00000125648.13ENST00000301454hsa-miR-197-5p644124264412498mer-1a64412426441267167-31.04
CAediting_86358chr1_109598906_+ENSG00000125648.13ENST00000301454hsa-miR-197-5p644112864411347mer-m864411276441149162-24.16
CAediting_77128chr1_85133844_+ENSG00000125648.13ENST00000301454hsa-miR-4423-3p644079864408047mer-m864407976440817150-17.01
CAediting_442554chr5_154685830_+ENSG00000125648.13ENST00000301454hsa-miR-1303644135564413617mer-m864413546441376157-25.07
CAediting_468389chr6_31355314_-ENSG00000125648.13ENST00000301454hsa-miR-6891-5p644028464402907mer-m864402836440301142-19.63

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 SLC25A23

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 SLC25A23

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.)
LGGCAediting_1280947chr19_6441851_-0.0008117599133552650.362698233910566....
BRCACAediting_1280947chr19_6441851_-5.65658386801021e-090.364958251664561....
LIHCCAediting_1280947chr19_6441851_-0.03480845805800230.214575741440272....
LUADCAediting_1280947chr19_6441851_-2.99936199387305e-100.495980995832977....
LUSCCAediting_1280947chr19_6441851_-..0.0349084854727090.250777721733805..
STADCAediting_1280947chr19_6441851_-..0.04877728667024770.255529402647348..
KIRCCAediting_1280947chr19_6441851_-0.0004180927347743930.358485810193491....
UCECCAediting_1280947chr19_6441851_-0.04700726356678570.231687403067475....
OVCAediting_1280947chr19_6441851_-2.24931382624e-070.403911190556942....
LGGCAediting_1280982chr19_6456000_-..0.02202746725892680.302852206489244..

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Relation with cancer stages for SLC25A23

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.
KIRCpathologic_stageCAediting_1280947chr19_6441851_-0.005198795342668030.289047351445594

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Relation with survival for SLC25A23

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR
KIRCCAediting_1280947chr19_6441851_-0.006147872397721520.002552025080.03

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RelatedDrugs for SLC25A23

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 SLC25A23

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