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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: GPM6B (CAeditome ID:2824)

Gene summary for GPM6B

check button Gene summary
Gene informationGene symbol

GPM6B

Gene ID

2824

Gene nameglycoprotein M6B
SynonymsM6B
Cytomap

Xp22.2

Type of geneprotein-coding
Descriptionneuronal membrane glycoprotein M6-bprotolipid M6B
Modification date20210518
UniProtAcc

Q13491

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 GPM6B

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: ENSG00000046653.13

check button RNA A-to-I editing events in Cancer.
CAediting_1499191(13771274, -), CAediting_1499192(13771859, -), CAediting_1499193(13771874, -), CAediting_1499194(13771884, -), CAediting_1499195(13771906, -), CAediting_1499196(13771908, -), CAediting_1499197(13771983, -), CAediting_1499198(13772009, -), CAediting_1499199(13772550, -), CAediting_1499200(13772673, -), CAediting_1499201(13772905, -), CAediting_1499202(13773311, -), CAediting_1499203(13778197, -), CAediting_1499204(13778329, -), CAediting_1499205(13812178, -), CAediting_1499206(13812187, -), CAediting_1499207(13826625, -), CAediting_1499208(13826686, -), CAediting_1499209(13826697, -), CAediting_1499210(13827340, -), CAediting_1499211(13827420, -), CAediting_1499212(13845057, -), CAediting_1499213(13870954, -), CAediting_1499214(13871010, -), CAediting_1499215(13872234, -), CAediting_1499216(13872269, -), CAediting_1499217(13872272, -), CAediting_1499218(13872299, -), CAediting_1499219(13872303, -), CAediting_1499220(13872309, -), CAediting_1499221(13872317, -), CAediting_1499222(13872319, -), CAediting_1499223(13872369, -), CAediting_1499224(13872373, -), CAediting_1499225(13895887, -), CAediting_1499226(13909191, -), CAediting_1499227(13909192, -), CAediting_1499228(13909318, -), CAediting_1499229(13909319, -), CAediting_1499230(13910386, -), CAediting_1499231(13913314, -), CAediting_1499232(13920889, -), CAediting_1499233(13921665, -), CAediting_1499234(13921707, -), CAediting_1499235(13921711, -), CAediting_1499236(13922240, -), CAediting_1499237(13925405, -),

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RNA editing positional annotations for GPM6B 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_1499191chrX_13771274_-UTR3
CAediting_1499192chrX_13771859_-UTR3
CAediting_1499193chrX_13771874_-UTR3
CAediting_1499194chrX_13771884_-UTR3
CAediting_1499195chrX_13771906_-UTR3
CAediting_1499196chrX_13771908_-UTR3
CAediting_1499197chrX_13771983_-UTR3
CAediting_1499198chrX_13772009_-UTR3
CAediting_1499199chrX_13772550_-UTR3
CAediting_1499200chrX_13772673_-UTR3
CAediting_1499201chrX_13772905_-exonic
CAediting_1499202chrX_13773311_-ncRNA_intronic
CAediting_1499203chrX_13778197_-ncRNA_intronic
CAediting_1499204chrX_13778329_-ncRNA_intronic
CAediting_1499205chrX_13812178_-intronic
CAediting_1499206chrX_13812187_-intronic
CAediting_1499207chrX_13826625_-intronic
CAediting_1499208chrX_13826686_-intronic
CAediting_1499209chrX_13826697_-intronic
CAediting_1499210chrX_13827340_-intronic
CAediting_1499211chrX_13827420_-intronic
CAediting_1499212chrX_13845057_-intronic
CAediting_1499213chrX_13870954_-intronic
CAediting_1499214chrX_13871010_-intronic
CAediting_1499215chrX_13872234_-intronic
CAediting_1499216chrX_13872269_-intronic
CAediting_1499217chrX_13872272_-intronic
CAediting_1499218chrX_13872299_-intronic
CAediting_1499219chrX_13872303_-intronic
CAediting_1499220chrX_13872309_-intronic
CAediting_1499221chrX_13872317_-intronic
CAediting_1499222chrX_13872319_-intronic
CAediting_1499223chrX_13872369_-intronic
CAediting_1499224chrX_13872373_-intronic
CAediting_1499225chrX_13895887_-intronic
CAediting_1499226chrX_13909191_-intronic
CAediting_1499227chrX_13909192_-intronic
CAediting_1499228chrX_13909318_-intronic
CAediting_1499229chrX_13909319_-intronic
CAediting_1499230chrX_13910386_-intronic
CAediting_1499231chrX_13913314_-intronic
CAediting_1499232chrX_13920889_-intronic
CAediting_1499233chrX_13921665_-intronic
CAediting_1499234chrX_13921707_-intronic
CAediting_1499235chrX_13921711_-intronic
CAediting_1499236chrX_13922240_-intronic
CAediting_1499237chrX_13925405_-intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_1499203chrX_13778197_-SINEAluAluSg7
CAediting_1499204chrX_13778329_-SINEAluAluSg7
CAediting_1499205chrX_13812178_-SINEAluAluY
CAediting_1499206chrX_13812187_-SINEAluAluY
CAediting_1499207chrX_13826625_-SINEAluAluJo
CAediting_1499208chrX_13826686_-SINEAluAluJo
CAediting_1499209chrX_13826697_-SINEAluAluJo
CAediting_1499210chrX_13827340_-SINEAluAluJo
CAediting_1499211chrX_13827420_-SINEAluAluJo
CAediting_1499212chrX_13845057_-SINEAluAluSx
CAediting_1499213chrX_13870954_-SINEAluAluJo
CAediting_1499214chrX_13871010_-SINEAluAluJo
CAediting_1499215chrX_13872234_-SINEAluAluJb
CAediting_1499216chrX_13872269_-SINEAluAluJb
CAediting_1499217chrX_13872272_-SINEAluAluJb
CAediting_1499218chrX_13872299_-SINEAluAluJb
CAediting_1499219chrX_13872303_-SINEAluAluJb
CAediting_1499220chrX_13872309_-SINEAluAluJb
CAediting_1499221chrX_13872317_-SINEAluAluJb
CAediting_1499222chrX_13872319_-SINEAluAluJb
CAediting_1499223chrX_13872369_-SINEAluAluJb
CAediting_1499224chrX_13872373_-SINEAluAluJb
CAediting_1499225chrX_13895887_-SINEAluAluJo
CAediting_1499226chrX_13909191_-SINEAluAluSz
CAediting_1499227chrX_13909192_-SINEAluAluSz
CAediting_1499228chrX_13909318_-SINEAluAluSz
CAediting_1499229chrX_13909319_-SINEAluAluSz
CAediting_1499230chrX_13910386_-DNAhAT-CharlieMER5B
CAediting_1499231chrX_13913314_-SINEAluAluJb
CAediting_1499232chrX_13920889_-SINEAluAluY
CAediting_1499233chrX_13921665_-SINEAluAluSg
CAediting_1499234chrX_13921707_-SINEAluAluSg
CAediting_1499235chrX_13921711_-SINEAluAluSg
CAediting_1499236chrX_13922240_-DNAhAT-CharlieMER20
CAediting_1499237chrX_13925405_-SINEAluAluJr

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RNA A-to-I editing events in the alternative splicing sites for GPM6B

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 ENSG00000046653.13.GPM6B.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000046653.13.GPM6B.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for GPM6B

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

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

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 GPM6B

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 GPM6B

**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_1499200chrX_13772673_-ENSG00000046653.13ENST00000454189hsa-miR-548s13772669137726757mer-m81377266813772689148.00-15.09
CAediting_1499192chrX_13771859_-ENSG00000046653.13ENST00000454189hsa-miR-60713771857137718637mer-m81377185613771877141.00-5.41
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-196a-3p13772007137720137mer-m81377200613772027140.00-9.47
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-371413772004137720107mer-1a1377200413772025143.00-14.82
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-506-3p13772004137720107mer-1a1377200413772025142.00-20.29
CAediting_1499199chrX_13772550_-ENSG00000046653.13ENST00000454189hsa-miR-3927-5p13772545137725517mer-m81377254413772565141.00-9.36
CAediting_1499199chrX_13772550_-ENSG00000046653.13ENST00000454189hsa-miR-561-5p13772549137725557mer-m81377254813772570146.00-11.69
CAediting_1499194chrX_13771884_-ENSG00000046653.13ENST00000454189hsa-miR-128313771880137718878mer-1a1377188013771901159.00-13.33
CAediting_1499194chrX_13771884_-ENSG00000046653.13ENST00000454189hsa-miR-128313771880137718878mer-1a1377188013771901159.00-13.33
CAediting_1499194chrX_13771884_-ENSG00000046653.13ENST00000454189hsa-miR-361813771879137718857mer-m81377187813771899143.00-10.30
CAediting_1499197chrX_13771983_-ENSG00000046653.13ENST00000454189hsa-miR-60113771979137719868mer-1a1377197913772000160.00-22.16

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_1499201chrX_13772905_-ENSG00000046653.13ENST00000454189hsa-miR-4677-5p13772899137729068mer-1a1377289913772920150-12.64
CAediting_1499194chrX_13771884_-ENSG00000046653.13ENST00000454189hsa-miR-4796-5p13771879137718857mer-m81377187813771899140-6.46
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-548ag13772004137720118mer-1a1377200413772024144-10.8
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-548ag13772004137720118mer-1a1377200413772024144-10.8
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-548ai13772004137720118mer-1a1377200413772022151-9.46
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-548ba13772004137720118mer-1a1377200413772025148-11.75
CAediting_1499198chrX_13772009_-ENSG00000046653.13ENST00000454189hsa-miR-570-5p13772004137720118mer-1a1377200413772022151-9.46
CAediting_1499195chrX_13771906_-ENSG00000046653.13ENST00000454189hsa-miR-6753-3p13771902137719087mer-m81377190113771922140-13.08
CAediting_1499195chrX_13771906_-ENSG00000046653.13ENST00000454189hsa-miR-7107-3p13771902137719087mer-m81377190113771928150-14.42

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_688080chr9_63819626_+ENSG00000046653.13ENST00000454189hsa-miR-4477b13772458137724647mer-m81377245713772478158-16.14
CAediting_1229414chr17_67471546_+ENSG00000046653.13ENST00000454189hsa-miR-548aa13773410137734167mer-m81377340913773434157-16.25
CAediting_1160181chr17_7017644_-ENSG00000046653.13ENST00000454189hsa-miR-195-3p13773468137734747mer-m81377346713773488147-7.82
CAediting_396018chr5_1062918_-ENSG00000046653.13ENST00000454189hsa-miR-463513772457137724637mer-m81377245613772476157-19.37
CAediting_524911chr7_5495852_-ENSG00000046653.13ENST00000454189hsa-miR-589-3p13772816137728227mer-m81377281513772838150-14.81
CAediting_524911chr7_5495852_-ENSG00000046653.13ENST00000454189hsa-miR-589-3p13774511137745177mer-m81377451013774532143-14.74
CAediting_524911chr7_5495852_-ENSG00000046653.13ENST00000493677hsa-miR-589-3p13772816137728227mer-m81377281513772838150-14.81
CAediting_524911chr7_5495852_-ENSG00000046653.13ENST00000355135hsa-miR-589-3p13774511137745177mer-m81377451013774532143-14.74
CAediting_524911chr7_5495852_-ENSG00000046653.13ENST00000356942hsa-miR-589-3p13774511137745177mer-m81377451013774532143-14.74
CAediting_524911chr7_5495852_-ENSG00000046653.13ENST00000398361hsa-miR-589-3p13774511137745177mer-m81377451013774532143-14.74

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_1160181chr17_7017644_-ENSG00000046653.13ENST00000454189hsa-miR-195-3p13772687137726937mer-m81377268613772707147-11.76
CAediting_688080chr9_63819626_+ENSG00000046653.13ENST00000454189hsa-miR-4477b13772549137725557mer-m81377254813772566146-14.18
CAediting_688080chr9_63819626_+ENSG00000046653.13ENST00000454189hsa-miR-4477b13772528137725347mer-m81377252713772550143-13.86
CAediting_228905chr2_188297554_+ENSG00000046653.13ENST00000454189hsa-miR-561-3p13772384137723907mer-m81377238313772404152-11.89

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 GPM6B

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 GPM6B

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_1499198chrX_13772009_-1.22614976468714e-050.561360273401978....

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Relation with cancer stages for GPM6B

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

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Relation with survival for GPM6B

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR

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RelatedDrugs for GPM6B

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 GPM6B

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