CAeditome Logo

Home

Download

Statistics

Examples

Help

Contact

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: PODXL (CAeditome ID:5420)

Gene summary for PODXL

check button Gene summary
Gene informationGene symbol

PODXL

Gene ID

5420

Gene namepodocalyxin like
SynonymsGp200|PC|PCLP|PCLP-1|PDX|PODXL1|gp135
Cytomap

7q32.3

Type of geneprotein-coding
DescriptionpodocalyxinGCTM-2 antigenpodocalyxin-like protein 1
Modification date20210518
UniProtAcc

O00592

Context

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

GO:0030335

Podocalyxin

18456258

PODXL

GO:0033634

Podocalyxin

18456258

PODXL

GO:0001726

Podocalyxin

18456258

PODXL

GO:0005730

Podocalyxin

0000052

PODXL

GO:0005737

Podocalyxin

18456258

PODXL

GO:0005886

Podocalyxin

0000052

PODXL

GO:0005886

Podocalyxin

18456258

PODXL

GO:0030027

Podocalyxin

18456258

PODXL

GO:0030175

Podocalyxin

18456258

PODXL

GO:0034451

Podocalyxin

0000052

PODXL

GO:0043231

Podocalyxin

0000052

PODXL

GO:0070062

Podocalyxin

15326289


Top

RNA A-to-I events for PODXL

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: ENSG00000128567.15
boxplot

check button RNA A-to-I editing events in Cancer.
CAediting_604327(131501316, -), CAediting_604328(131508456, -), CAediting_604329(131508530, -), CAediting_604330(131508536, -), CAediting_604331(131510239, -), CAediting_604332(131510251, -), CAediting_604333(131510252, -), CAediting_604334(131510274, -), CAediting_604335(131510284, -), CAediting_604336(131510291, -), CAediting_604337(131510292, -), CAediting_604338(131510304, -), CAediting_604339(131510316, -), CAediting_604340(131510324, -), CAediting_604341(131510326, -), CAediting_604342(131510328, -), CAediting_604343(131510330, -), CAediting_604344(131514353, -), CAediting_604345(131516832, -), CAediting_604346(131516838, -), CAediting_604347(131516841, -), CAediting_604348(131516845, -), CAediting_604349(131516850, -), CAediting_604350(131516862, -), CAediting_604351(131516881, -), CAediting_604352(131516919, -), CAediting_604353(131517906, -), CAediting_604354(131519887, -), CAediting_604355(131526828, -), CAediting_604356(131552911, -), CAediting_604357(131552970, -), CAediting_604358(131552971, -),

Top

RNA editing positional annotations for PODXL using Annovar

check button Protein coding RNA editing(s).
CAeditome IDPositionVariant typeENSTNTchangeAAchangeSIFT_scorePolyphen2_HVAR_scorePROVEAN_pred
CAediting_604334chr7_131510274_-nonsynonymous SNVENST00000378555.6c.A764Gp.D255GDPN
CAediting_604337chr7_131510292_-nonsynonymous SNVENST00000378555.6c.A746Gp.E249GDBN

check button Gene structure information of RNA editing(s).
CAeditome IDPositionVariant type
CAediting_604327chr7_131501316_-UTR3
CAediting_604328chr7_131508456_-ncRNA_intronic
CAediting_604329chr7_131508530_-ncRNA_intronic
CAediting_604330chr7_131508536_-ncRNA_intronic
CAediting_604331chr7_131510239_-exonic
CAediting_604332chr7_131510251_-exonic
CAediting_604333chr7_131510252_-exonic
CAediting_604334chr7_131510274_-exonic
CAediting_604335chr7_131510284_-exonic
CAediting_604336chr7_131510291_-exonic
CAediting_604337chr7_131510292_-exonic
CAediting_604338chr7_131510304_-exonic
CAediting_604339chr7_131510316_-exonic
CAediting_604340chr7_131510324_-exonic
CAediting_604341chr7_131510326_-exonic
CAediting_604342chr7_131510328_-exonic
CAediting_604343chr7_131510330_-exonic
CAediting_604344chr7_131514353_-ncRNA_intronic
CAediting_604345chr7_131516832_-ncRNA_intronic
CAediting_604346chr7_131516838_-ncRNA_intronic
CAediting_604347chr7_131516841_-ncRNA_intronic
CAediting_604348chr7_131516845_-ncRNA_intronic
CAediting_604349chr7_131516850_-ncRNA_intronic
CAediting_604350chr7_131516862_-ncRNA_intronic
CAediting_604351chr7_131516881_-ncRNA_intronic
CAediting_604352chr7_131516919_-ncRNA_intronic
CAediting_604353chr7_131517906_-ncRNA_intronic
CAediting_604354chr7_131519887_-ncRNA_intronic
CAediting_604355chr7_131526828_-ncRNA_intronic
CAediting_604356chr7_131552911_-ncRNA_intronic
CAediting_604357chr7_131552970_-ncRNA_intronic
CAediting_604358chr7_131552971_-ncRNA_intronic

check button Repat-regional RNA editing(s).
CAeditome IDPositionRepeat familyRepeat sub familyRepeat name
CAediting_604328chr7_131508456_-SINEAluAluJr4
CAediting_604329chr7_131508530_-SINEAluAluJr4
CAediting_604330chr7_131508536_-SINEAluAluJr4
CAediting_604331chr7_131510239_-SINEAluAluSx3
CAediting_604332chr7_131510251_-SINEAluAluSx3
CAediting_604333chr7_131510252_-SINEAluAluSx3
CAediting_604334chr7_131510274_-SINEAluAluSx3
CAediting_604335chr7_131510284_-SINEAluAluSx3
CAediting_604336chr7_131510291_-SINEAluAluSx3
CAediting_604337chr7_131510292_-SINEAluAluSx3
CAediting_604338chr7_131510304_-SINEAluAluSx3
CAediting_604339chr7_131510316_-SINEAluAluSx3
CAediting_604340chr7_131510324_-SINEAluAluSx3
CAediting_604341chr7_131510326_-SINEAluAluSx3
CAediting_604342chr7_131510328_-SINEAluAluSx3
CAediting_604343chr7_131510330_-SINEAluAluSx3
CAediting_604344chr7_131514353_-SINEAluAluSx1
CAediting_604345chr7_131516832_-SINEAluAluJo
CAediting_604346chr7_131516838_-SINEAluAluJo
CAediting_604347chr7_131516841_-SINEAluAluJo
CAediting_604348chr7_131516845_-SINEAluAluJo
CAediting_604349chr7_131516850_-SINEAluAluJo
CAediting_604350chr7_131516862_-SINEAluAluJo
CAediting_604351chr7_131516881_-SINEAluAluJo
CAediting_604352chr7_131516919_-SINEAluAluJo
CAediting_604353chr7_131517906_-SINEAluAluSx
CAediting_604354chr7_131519887_-SINEAluAluJb
CAediting_604355chr7_131526828_-SINEAluAluSx1
CAediting_604356chr7_131552911_-SINEAluAluJb
CAediting_604357chr7_131552970_-SINEAluAluJb
CAediting_604358chr7_131552971_-SINEAluAluJb

Top

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

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_604341chr7_131510326_-131510326:1315103483SS3+0iTTTTTTTTTTTTTCAAGTAGAGA5.5TTTTTTTTTTTTTCAAGTAGAGG5.22
ESCAediting_604342chr7_131510328_-131510326:1315103483SS1+0iTTTTTTTTTTTTTCAAGTAGAGA5.5TTTTTTTTTTTTTCAAGTAGGGA7.08
ESCAediting_604343chr7_131510330_-131510326:1315103483SS0+2iTTTTTTTTTTTTTCAAGTAGAGA5.5TTTTTTTTTTTTTCAAGTGGAGA-2.45
ESCAediting_604343chr7_131510330_-131510329:1315103513SS2+0iTTTTTTTTTTTTTTTTCAAGTAG6.53TTTTTTTTTTTTTTTTCAAGTGG7.67

check button Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000128567.15.PODXL.

check button Correlation between RNA A-to-I editing and PSI for ENSG00000128567.15.PODXL.

Top

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

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.

Top

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

check button- Lollipop plot for RNA A-to-I editings across protein structure.
* Click on the image to enlarge it in a new window.
all structure


Top

The effects of the RNA editing to the miRNA binding sites for PODXL

**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_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-4436b-3p1315013121315013187mer-m8131501311131501332160.00-26.64
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-4436b-3p1315013121315013187mer-m8131501311131501332160.00-26.64
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-4632-5p1315013121315013187mer-m8131501311131501332157.00-23.78
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-47361315013141315013207mer-m8131501313131501332160.00-20.36
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-6571315013151315013217mer-m8131501314131501336152.00-18.27
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-6721-5p1315013131315013197mer-m8131501312131501334146.00-18.40
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-6735-5p1315013121315013187mer-m8131501311131501334144.00-25.71
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-6879-5p1315013121315013187mer-m8131501311131501333156.00-27.49
CAediting_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-7843-5p1315013121315013187mer-m8131501311131501335143.00-18.61

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_604327chr7_131501316_-ENSG00000128567.15ENST00000446198hsa-miR-6755-5p1315013121315013187mer-m8131501311131501330142-16.25

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_+ENSG00000128567.15ENST00000446198hsa-miR-605-3p1315091871315091948mer-1a131509187131509208147-16.76
CAediting_846604chr11_93733708_-ENSG00000128567.15ENST00000446198hsa-miR-1304-3p1315023911315023977mer-m8131502390131502415151-30.97
CAediting_980496chr14_31014685_-ENSG00000128567.15ENST00000446198hsa-miR-624-3p1315010071315010148mer-1a131501007131501027140-17.25
CAediting_688080chr9_63819626_+ENSG00000128567.15ENST00000446198hsa-miR-4477b1315009151315009228mer-1a131500915131500940150-13.64
CAediting_396018chr5_1062918_-ENSG00000128567.15ENST00000446198hsa-miR-46351315091851315091917mer-m8131509184131509204155-19.26
CAediting_604450chr7_133034877_-ENSG00000128567.15ENST00000446198hsa-miR-36541315091441315091507mer-m8131509143131509161140-19.91
CAediting_1229414chr17_67471546_+ENSG00000128567.15ENST00000446198hsa-miR-548aa1315007251315007317mer-m8131500724131500749151-12.24
CAediting_1229414chr17_67471546_+ENSG00000128567.15ENST00000446198hsa-miR-548aa1315004671315004737mer-m8131500466131500490146-15.6
CAediting_1368054chr19_46709310_-ENSG00000128567.15ENST00000446198hsa-miR-320e1315037701315037767mer-m8131503769131503786147-21.63
CAediting_86358chr1_109598906_+ENSG00000128567.15ENST00000446198hsa-miR-197-5p1315022101315022178mer-1a131502210131502234165-32.06
CAediting_580943chr7_100356700_+ENSG00000128567.15ENST00000446198hsa-miR-6840-3p1315032521315032587mer-m8131503251131503277144-24.64
CAediting_580943chr7_100356700_+ENSG00000128567.15ENST00000446198hsa-miR-6840-3p1315038621315038687mer-m8131503861131503883159-33.38
CAediting_604450chr7_133034877_-ENSG00000128567.15ENST00000446198hsa-miR-36541315037721315037787mer-m8131503771131503789140-17.25
CAediting_524911chr7_5495852_-ENSG00000128567.15ENST00000446198hsa-miR-589-3p1315010261315010327mer-m8131501025131501046155-20.26
CAediting_468389chr6_31355314_-ENSG00000128567.15ENST00000446198hsa-miR-6891-5p1315092281315092347mer-m8131509227131509244154-24.05

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_1368054chr19_46709310_-ENSG00000128567.15ENST00000446198hsa-miR-320e1315091301315091367mer-m8131509129131509146141-12.68
CAediting_573001chr7_92204086_-ENSG00000128567.15ENST00000446198hsa-miR-1285-5p1315040021315040087mer-m8131504001131504021145-13.08
CAediting_573001chr7_92204086_-ENSG00000128567.15ENST00000446198hsa-miR-1285-5p1315035821315035887mer-m8131503581131503601140-8.24
CAediting_604450chr7_133034877_-ENSG00000128567.15ENST00000446198hsa-miR-36541315030661315030727mer-m8131503065131503083140-17.02
CAediting_524911chr7_5495852_-ENSG00000128567.15ENST00000446198hsa-miR-589-3p1315036151315036217mer-m8131503614131503634150-17.06
CAediting_1351755chr19_40282625_-ENSG00000128567.15ENST00000446198hsa-miR-6411315012211315012288mer-1a131501221131501244140-10.15
CAediting_1351755chr19_40282625_-ENSG00000128567.15ENST00000446198hsa-miR-6411315004081315004158mer-1a131500408131500429154-16.28
CAediting_580943chr7_100356700_+ENSG00000128567.15ENST00000446198hsa-miR-6840-3p1315021431315021497mer-m8131502142131502162150-20.83
CAediting_468389chr6_31355314_-ENSG00000128567.15ENST00000446198hsa-miR-6891-5p1315021561315021627mer-m8131502155131502173144-15.88

check button Differentially expressed gene-miRNA network

Top

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

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.
ENST00000446198.4nonsense_mediated_decaySoverviewSoverview
ENST00000378555.6protein_codingSoverviewSoverview

check button RNA A-to-I editing in RNA structures for Minimum free energy (MFE).
CAeditom_IDENSTEditing_PositionMFE_withoneAIMFE_withoutAIMFE_withmultipleAI
CAediting_604327ENST00000446198.4chr7_131501316_--2172.30-2171.90-2172.30
CAediting_604331ENST00000378555.6chr7_131510239_--744.40-739.00-768.50
CAediting_604332ENST00000378555.6chr7_131510251_--745.60-739.00-768.50
CAediting_604333ENST00000378555.6chr7_131510252_--742.70-739.00-768.50
CAediting_604334ENST00000378555.6chr7_131510274_--741.60-739.00-768.50
CAediting_604335ENST00000378555.6chr7_131510284_--744.30-739.00-768.50
CAediting_604336ENST00000378555.6chr7_131510291_--740.30-739.00-768.50
CAediting_604337ENST00000378555.6chr7_131510292_--740.30-739.00-768.50
CAediting_604338ENST00000378555.6chr7_131510304_--741.20-739.00-768.50
CAediting_604339ENST00000378555.6chr7_131510316_--739.60-739.00-768.50
CAediting_604340ENST00000378555.6chr7_131510324_--740.90-739.00-768.50
CAediting_604341ENST00000378555.6chr7_131510326_--742.90-739.00-768.50
CAediting_604342ENST00000378555.6chr7_131510328_--742.90-739.00-768.50
CAediting_604343ENST00000378555.6chr7_131510330_--742.00-739.00-768.50

Top

Relation with ADAR for PODXL

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_604339chr7_131510316_-0.02639731441212590.127982679426235....

Top

Relation with cancer stages for PODXL

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

Top

Relation with survival for PODXL

check button Correlation between RNA editing and survival
CancerCAeditomIDpositionKMpvalueCoxpvalueCoxHR
BRCACAediting_604339chr7_131510316_-0.004725002062500040.01467190.000331561

Top

RelatedDrugs for PODXL

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

Top

RelatedDiseases for PODXL

check button Diseases associated with this gene.
(DisGeNet 7.0)
GeneDisease IDDisease name# pubmedsSource
PODXLC3501848Nephrosis, congenital2GENOMICS_ENGLAND
PODXLC0007273Carotid Artery Diseases1CTD_human
PODXLC0019080Hemorrhage1CTD_human
PODXLC0027726Nephrotic Syndrome1GENOMICS_ENGLAND
PODXLC0033578Prostatic Neoplasms1CTD_human
PODXLC0040053Thrombosis1CTD_human
PODXLC0087086Thrombus1CTD_human
PODXLC0376358Malignant neoplasm of prostate1CTD_human
PODXLC0577631Carotid Atherosclerosis1CTD_human
PODXLC0600178External Carotid Artery Diseases1CTD_human
PODXLC0750986Internal Carotid Artery Diseases1CTD_human
PODXLC0750987Arterial Diseases, Common Carotid1CTD_human
PODXLC4510873Atypical juvenile parkinsonism1ORPHANET