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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: RBM8A (CAeditome ID:9939)

Gene summary for RBM8A

check button Gene summary
Gene informationGene symbol

RBM8A

Gene ID

9939

Gene nameRNA binding motif protein 8A
SynonymsBOV-1A|BOV-1B|BOV-1C|C1DELq21.1|DEL1q21.1|MDS014|RBM8|RBM8B|TAR|Y14|ZNRP|ZRNP1
Cytomap

1q21.1

Type of geneprotein-coding
DescriptionRNA-binding protein 8ABOV-1RNA binding motif protein 8BRNA-binding protein Y14binder of OVCA1binder of OVCA1-1ribonucleoprotein RBM8ribonucleoprotein RBM8A
Modification date20210518
UniProtAcc

Q9Y5S9

Context

check button Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez
GeneGO IDGO termPubMed ID
RBM8A

GO:0000398

RNA-binding protein 8A

29301961

RBM8A

GO:0005634

RNA-binding protein 8A

29301961

RBM8A

GO:0016607

RNA-binding protein 8A

0000052

RBM8A

GO:0035145

RNA-binding protein 8A

16601204

RBM8A

GO:0035145

RNA-binding protein 8A

18026120

RBM8A

GO:0035145

RNA-binding protein 8A

19410547

RBM8A

GO:0071006

RNA-binding protein 8A

29301961

RBM8A

GO:0071013

RNA-binding protein 8A

11991638


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RNA A-to-I events for RBM8A

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: ENSG00000265241.5
boxplot

check button RNA A-to-I editing events in Cancer.
CAediting_92917(145925437, -), CAediting_92918(145925457, -), CAediting_92919(145925476, -), CAediting_92920(145925482, -), CAediting_92921(145925484, -), CAediting_92922(145925487, -), CAediting_92923(145925494, -), CAediting_92924(145925497, -), CAediting_92925(145925523, -), CAediting_92926(145925524, -), CAediting_92927(145925537, -), CAediting_92928(145925544, -), CAediting_92929(145925556, -), CAediting_92930(145925576, -), CAediting_92931(145925596, -), CAediting_92932(145925600, -),

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RNA editing positional annotations for RBM8A 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_92917chr1_145925437_-UTR3
CAediting_92918chr1_145925457_-UTR3
CAediting_92919chr1_145925476_-UTR3
CAediting_92920chr1_145925482_-UTR3
CAediting_92921chr1_145925484_-UTR3
CAediting_92922chr1_145925487_-UTR3
CAediting_92923chr1_145925494_-UTR3
CAediting_92924chr1_145925497_-UTR3
CAediting_92925chr1_145925523_-UTR3
CAediting_92926chr1_145925524_-UTR3
CAediting_92927chr1_145925537_-UTR3
CAediting_92928chr1_145925544_-UTR3
CAediting_92929chr1_145925556_-UTR3
CAediting_92930chr1_145925576_-UTR3
CAediting_92931chr1_145925596_-UTR3
CAediting_92932chr1_145925600_-UTR3

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_92917chr1_145925437_-SINEAluAluJo
CAediting_92918chr1_145925457_-SINEAluAluJo
CAediting_92919chr1_145925476_-SINEAluAluJo
CAediting_92920chr1_145925482_-SINEAluAluJo
CAediting_92921chr1_145925484_-SINEAluAluJo
CAediting_92922chr1_145925487_-SINEAluAluJo
CAediting_92923chr1_145925494_-SINEAluAluJo
CAediting_92924chr1_145925497_-SINEAluAluJo
CAediting_92925chr1_145925523_-SINEAluAluJo
CAediting_92926chr1_145925524_-SINEAluAluJo
CAediting_92927chr1_145925537_-SINEAluAluJo
CAediting_92928chr1_145925544_-SINEAluAluJo
CAediting_92929chr1_145925556_-SINEAluAluJo
CAediting_92930chr1_145925576_-SINEAluAluJo
CAediting_92931chr1_145925596_-SINEAluAluJo
CAediting_92932chr1_145925600_-SINEAluAluJo

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RNA A-to-I editing events in the alternative splicing sites for RBM8A

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 ENSG00000265241.5.RBM8A.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000265241.5.RBM8A.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for RBM8A

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 RBM8A

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 RBM8A

**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_92925chr1_145925523_-ENSG00000265241.5ENST00000583313hsa-miR-1199-5p1459255231459255297mer-m8145925522145925541152.00-25.84
CAediting_92925chr1_145925523_-ENSG00000265241.5ENST00000583313hsa-miR-6751-3p1459255231459255297mer-m8145925522145925542141.00-13.15
CAediting_92932chr1_145925600_-ENSG00000265241.5ENST00000583313hsa-miR-4733-5p1459255961459256038mer-1a145925596145925617140.00-10.39
CAediting_92922chr1_145925487_-ENSG00000265241.5ENST00000583313hsa-miR-6793-3p1459254871459254937mer-m8145925486145925505145.00-18.98
CAediting_92924chr1_145925497_-ENSG00000265241.5ENST00000583313hsa-miR-211-3p1459254971459255037mer-m8145925496145925516154.00-23.89
CAediting_92924chr1_145925497_-ENSG00000265241.5ENST00000583313hsa-miR-6753-5p1459254941459255018mer-1a145925494145925515154.00-23.33
CAediting_92924chr1_145925497_-ENSG00000265241.5ENST00000583313hsa-miR-7113-5p1459254961459255027mer-m8145925495145925513154.00-22.40
CAediting_92930chr1_145925576_-ENSG00000265241.5ENST00000583313hsa-miR-5587-3p1459255731459255797mer-m8145925572145925591149.00-20.39
CAediting_92919chr1_145925476_-ENSG00000265241.5ENST00000583313hsa-miR-6767-3p1459254741459254807mer-m8145925473145925494159.00-20.00
CAediting_92927chr1_145925537_-ENSG00000265241.5ENST00000583313hsa-miR-5007-5p1459255321459255387mer-m8145925531145925554154.00-20.60

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_92919chr1_145925476_-ENSG00000265241.5ENST00000583313hsa-miR-102261459254741459254796mer145925473145925494140-17.57
CAediting_92920chr1_145925482_-ENSG00000265241.5ENST00000583313hsa-miR-1271-3p1459254761459254838mer-1a145925476145925495151-18.71
CAediting_92925chr1_145925523_-ENSG00000265241.5ENST00000583313hsa-miR-135a-5p1459255181459255247mer-m8145925517145925539140-11.49
CAediting_92925chr1_145925523_-ENSG00000265241.5ENST00000583313hsa-miR-135a-5p1459255181459255247mer-m8145925517145925539140-11.49
CAediting_92925chr1_145925523_-ENSG00000265241.5ENST00000583313hsa-miR-135b-5p1459255181459255247mer-m8145925517145925539140-11.49
CAediting_92928chr1_145925544_-ENSG00000265241.5ENST00000583313hsa-miR-17-3p1459255431459255497mer-m8145925542145925563150-18.01
CAediting_92930chr1_145925576_-ENSG00000265241.5ENST00000583313hsa-miR-3620-3p1459255711459255777mer-m8145925570145925591151-18.82
CAediting_92917chr1_145925437_-ENSG00000265241.5ENST00000583313hsa-miR-3675-3p1459254341459254407mer-m8145925433145925454151-12.82
CAediting_92932chr1_145925600_-ENSG00000265241.5ENST00000583313hsa-miR-371b-5p1459255981459256058mer-1a145925598145925619150-9.63
CAediting_92932chr1_145925600_-ENSG00000265241.5ENST00000583313hsa-miR-373-5p1459255981459256058mer-1a145925598145925619146-10.14
CAediting_92918chr1_145925457_-ENSG00000265241.5ENST00000583313hsa-miR-42821459254521459254587mer-m8145925451145925468141-5.13
CAediting_92930chr1_145925576_-ENSG00000265241.5ENST00000583313hsa-miR-42921459255731459255797mer-m8145925572145925589140-18.29
CAediting_92919chr1_145925476_-ENSG00000265241.5ENST00000583313hsa-miR-455-5p1459254751459254817mer-m8145925474145925494153-16.6
CAediting_92917chr1_145925437_-ENSG00000265241.5ENST00000583313hsa-miR-4684-5p1459254351459254417mer-m8145925434145925455144-7.93
CAediting_92932chr1_145925600_-ENSG00000265241.5ENST00000583313hsa-miR-514b-5p1459255981459256036mer145925597145925618150-16.03
CAediting_92917chr1_145925437_-ENSG00000265241.5ENST00000583313hsa-miR-519a-2-5p1459254351459254428mer-1a145925435145925455148-12.66
CAediting_92917chr1_145925437_-ENSG00000265241.5ENST00000583313hsa-miR-520b-5p1459254351459254428mer-1a145925435145925455148-12.66
CAediting_92920chr1_145925482_-ENSG00000265241.5ENST00000583313hsa-miR-550a-3-5p1459254761459254838mer-1a145925476145925495141-12.83
CAediting_92920chr1_145925482_-ENSG00000265241.5ENST00000583313hsa-miR-550a-5p1459254761459254838mer-1a145925476145925498141-17.77
CAediting_92920chr1_145925482_-ENSG00000265241.5ENST00000583313hsa-miR-550a-5p1459254761459254838mer-1a145925476145925498141-17.77
CAediting_92919chr1_145925476_-ENSG00000265241.5ENST00000583313hsa-miR-550b-2-5p1459254761459254827mer-m8145925475145925496146-17.87
CAediting_92919chr1_145925476_-ENSG00000265241.5ENST00000583313hsa-miR-550b-2-5p1459254761459254827mer-m8145925475145925496146-17.87
CAediting_92923chr1_145925494_-ENSG00000265241.5ENST00000583313hsa-miR-6061459254911459254977mer-m8145925490145925510141-8.35
CAediting_92932chr1_145925600_-ENSG00000265241.5ENST00000583313hsa-miR-616-5p1459255981459256058mer-1a145925598145925619140-5.71
CAediting_92930chr1_145925576_-ENSG00000265241.5ENST00000583313hsa-miR-6742-3p1459255741459255807mer-m8145925573145925592141-14.51
CAediting_92930chr1_145925576_-ENSG00000265241.5ENST00000583313hsa-miR-6791-5p1459255731459255797mer-m8145925572145925595149-23.03
CAediting_92930chr1_145925576_-ENSG00000265241.5ENST00000583313hsa-miR-6861-5p1459255751459255817mer-m8145925574145925599151-23.43

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_+ENSG00000265241.5ENST00000583313hsa-miR-605-3p1459250791459250857mer-m8145925078145925098170-27.85
CAediting_980496chr14_31014685_-ENSG00000265241.5ENST00000583313hsa-miR-624-3p1459231181459231247mer-m8145923117145923139153-14.62
CAediting_1054808chr15_66496985_-ENSG00000265241.5ENST00000583313hsa-miR-45121459250531459250608mer-1a145925053145925074152-24.09
CAediting_1229414chr17_67471546_+ENSG00000265241.5ENST00000583313hsa-miR-548aa1459233441459233507mer-m8145923343145923372147-15.36
CAediting_1229414chr17_67471546_+ENSG00000265241.5ENST00000583313hsa-miR-548aa1459220211459220288mer-1a145922021145922045140-11.41
CAediting_1160181chr17_7017644_-ENSG00000265241.5ENST00000583313hsa-miR-195-3p1459238821459238887mer-m8145923881145923901154-15.12
CAediting_1368054chr19_46709310_-ENSG00000265241.5ENST00000583313hsa-miR-320e1459241791459241868mer-1a145924179145924196140-15.28
CAediting_86358chr1_109598906_+ENSG00000265241.5ENST00000583313hsa-miR-197-5p1459241081459241147mer-1a145924108145924130140-26.3
CAediting_86358chr1_109598906_+ENSG00000265241.5ENST00000583313hsa-miR-197-5p1459219941459220018mer-1a145921994145922022146-26.62
CAediting_117844chr1_162342605_+ENSG00000265241.5ENST00000583313hsa-miR-556-3p1459226541459226607mer-m8145922653145922675150-10.94
CAediting_1399425chr20_1392958_-ENSG00000265241.5ENST00000583313hsa-miR-6869-5p1459240991459241057mer-m8145924098145924118146-21.37
CAediting_228905chr2_188297554_+ENSG00000265241.5ENST00000583313hsa-miR-561-3p1459256271459256337mer-1a145925627145925647150-20.06
CAediting_228905chr2_188297554_+ENSG00000265241.5ENST00000583313hsa-miR-561-3p1459255321459255387mer-m8145925531145925554153-11.02
CAediting_396018chr5_1062918_-ENSG00000265241.5ENST00000583313hsa-miR-46351459220051459220117mer-m8145922004145922024162-21.04
CAediting_442554chr5_154685830_+ENSG00000265241.5ENST00000583313hsa-miR-13031459229381459229458mer-1a145922938145922957169-30.33
CAediting_604450chr7_133034877_-ENSG00000265241.5ENST00000583313hsa-miR-36541459249191459249268mer-1a145924919145924937145-16.28
CAediting_524911chr7_5495852_-ENSG00000265241.5ENST00000583313hsa-miR-589-3p1459232771459232837mer-m8145923276145923300143-13.13
CAediting_573001chr7_92204086_-ENSG00000265241.5ENST00000583313hsa-miR-1285-5p1459247241459247318mer-1a145924724145924745157-24.26

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_573001chr7_92204086_-ENSG00000265241.5ENST00000583313hsa-miR-1285-5p1459252911459252977mer-m8145925290145925311155-17.1
CAediting_1160181chr17_7017644_-ENSG00000265241.5ENST00000583313hsa-miR-195-3p1459237851459237917mer-m8145923784145923805147-8.09
CAediting_1160181chr17_7017644_-ENSG00000265241.5ENST00000583313hsa-miR-195-3p1459225451459225517mer-m8145922544145922563148-8.95
CAediting_393chr1_1167164_+ENSG00000265241.5ENST00000583313hsa-miR-200b-3p1459216581459216647mer-m8145921657145921678147-10.96
CAediting_393chr1_1167164_+ENSG00000265241.5ENST00000583313hsa-miR-200b-3p1459253341459253407mer-m8145925333145925354154-12.83
CAediting_688080chr9_63819626_+ENSG00000265241.5ENST00000583313hsa-miR-4477b1459240631459240697mer-m8145924062145924084152-10.91
CAediting_688081chr9_63819627_+ENSG00000265241.5ENST00000583313hsa-miR-4477b1459240631459240697mer-m8145924062145924084152-10.91
CAediting_396018chr5_1062918_-ENSG00000265241.5ENST00000583313hsa-miR-46351459258481459258558mer-1a145925848145925868154-19.1
CAediting_117844chr1_162342605_+ENSG00000265241.5ENST00000583313hsa-miR-556-3p1459249301459249378mer-1a145924930145924951149-6.93
CAediting_468389chr6_31355314_-ENSG00000265241.5ENST00000583313hsa-miR-6891-5p1459218031459218097mer-m8145921802145921820153-25.2

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 RBM8A

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.
ENST00000583313.5protein_codingSoverviewSoverview

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI
CAediting_92917ENST00000583313.5chr1_145925437_--1657.20-1652.30-1668.10
CAediting_92918ENST00000583313.5chr1_145925457_--1654.60-1652.30-1668.10
CAediting_92919ENST00000583313.5chr1_145925476_--1652.30-1652.30-1668.10
CAediting_92920ENST00000583313.5chr1_145925482_--1653.10-1652.30-1668.10
CAediting_92921ENST00000583313.5chr1_145925484_--1655.50-1652.30-1668.10
CAediting_92922ENST00000583313.5chr1_145925487_--1652.50-1652.30-1668.10
CAediting_92923ENST00000583313.5chr1_145925494_--1652.30-1652.30-1668.10
CAediting_92924ENST00000583313.5chr1_145925497_--1654.90-1652.30-1668.10
CAediting_92925ENST00000583313.5chr1_145925523_--1656.00-1652.30-1668.10
CAediting_92926ENST00000583313.5chr1_145925524_--1656.00-1652.30-1668.10
CAediting_92927ENST00000583313.5chr1_145925537_--1652.30-1652.30-1668.10
CAediting_92928ENST00000583313.5chr1_145925544_--1653.70-1652.30-1668.10
CAediting_92929ENST00000583313.5chr1_145925556_--1654.50-1652.30-1668.10
CAediting_92930ENST00000583313.5chr1_145925576_--1652.30-1652.30-1668.10
CAediting_92931ENST00000583313.5chr1_145925596_--1654.20-1652.30-1668.10
CAediting_92932ENST00000583313.5chr1_145925600_--1651.40-1652.30-1668.10

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Relation with ADAR for RBM8A

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_92925chr1_145925523_-....0.01557514356407490.113964914179642
CESCCAediting_92925chr1_145925523_-..0.04587575219110860.232855727361792..
KIRPCAediting_92925chr1_145925523_-....0.02446602772381350.272682931904328
ESCACAediting_92925chr1_145925523_-....0.004404537321725520.258231071732134
OVCAediting_92925chr1_145925523_-....0.04957151603111320.120983679103771
BRCACAediting_92926chr1_145925524_-..4.51915312842844e-060.5344806744299820.00397321666983750.352547822219926

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Relation with cancer stages for RBM8A

check button Correlation between Cancer stages and RNA editing frequency
CancerStage_typeCAeditomIDpositionP-valCoeff.
KIRCpathologic_stageCAediting_92925chr1_145925523_-0.02150362663598990.144780764455413
KIRCpathologic_stageCAediting_92932chr1_145925600_-0.007685256879337260.199191821720292
THCApathologic_stageCAediting_92925chr1_145925523_-0.02134155328578040.171972072544041

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Relation with survival for RBM8A

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for RBM8A

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 RBM8A

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource
RBM8AC0175703Thrombocytopenia-Absent Radius Syndrome3CTD_human;GENOMICS_ENGLAND;ORPHANET
RBM8AC3554656DYSKERATOSIS CONGENITA, AUTOSOMAL RECESSIVE 51GENOMICS_ENGLAND
RBM8AC4225346PULMONARY FIBROSIS AND/OR BONE MARROW FAILURE, TELOMERE-RELATED, 31GENOMICS_ENGLAND