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Editing gene: PPT1 (CAeditome ID:5538)

Gene summary for PPT1

Gene summary

Gene information	Gene symbol	PPT1
	Gene ID	5538
	Gene name	palmitoyl-protein thioesterase 1
	Synonyms	CLN1\|INCL\|PPT
	Cytomap	1p34.2
	Type of gene	protein-coding
	Description	palmitoyl-protein thioesterase 1ceroid-palmitoyl-palmitoyl-protein thioesterase 1palmitoyl-protein hydrolase 1
	Modification date	20210518
	UniProtAcc	P50897
	Context

Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez

Gene	GO ID	GO term	PubMed ID
PPT1	GO:0008474	Palmitoyl-protein thioesterase 1	10658183
PPT1	GO:0008474	Palmitoyl-protein thioesterase 1	10737604
PPT1	GO:0016290	Palmitoyl-protein thioesterase 1	10658183
PPT1	GO:0035727	Palmitoyl-protein thioesterase 1	18317235
PPT1	GO:0120146	Palmitoyl-protein thioesterase 1	18317235
PPT1	GO:0002084	Palmitoyl-protein thioesterase 1	10658183
PPT1	GO:0002084	Palmitoyl-protein thioesterase 1	10737604
PPT1	GO:0016042	Palmitoyl-protein thioesterase 1	8816748
PPT1	GO:0043066	Palmitoyl-protein thioesterase 1	15929065
PPT1	GO:0005576	Palmitoyl-protein thioesterase 1	8895569
PPT1	GO:0005634	Palmitoyl-protein thioesterase 1	10992246
PPT1	GO:0005764	Palmitoyl-protein thioesterase 1	11020216
PPT1	GO:0005764	Palmitoyl-protein thioesterase 1	19941651
PPT1	GO:0005764	Palmitoyl-protein thioesterase 1	8895569
PPT1	GO:0005794	Palmitoyl-protein thioesterase 1	0000052
PPT1	GO:0005794	Palmitoyl-protein thioesterase 1	7637805
PPT1	GO:0008021	Palmitoyl-protein thioesterase 1	12483688
PPT1	GO:0030424	Palmitoyl-protein thioesterase 1	12483688
PPT1	GO:0043231	Palmitoyl-protein thioesterase 1	0000052
PPT1	GO:0045121	Palmitoyl-protein thioesterase 1	15929065

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RNA A-to-I events for PPT1

RNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure.

RNA editing frequencies across 33 cancers of gene: ENSG00000131238.15

RNA A-to-I editing events in Cancer.

CAediting_50403(40073859, -), CAediting_50404(40074474, -), CAediting_50405(40074478, -), CAediting_50406(40074497, -), CAediting_50407(40074498, -), CAediting_50408(40074510, -), CAediting_50409(40074533, -), CAediting_50410(40074535, -), CAediting_50411(40074540, -), CAediting_50412(40074544, -), CAediting_50413(40074556, -), CAediting_50414(40074559, -), CAediting_50415(40074561, -), CAediting_50416(40074565, -), CAediting_50417(40074573, -), CAediting_50418(40074596, -), CAediting_50419(40074600, -), CAediting_50420(40074605, -), CAediting_50421(40074616, -), CAediting_50422(40074628, -), CAediting_50423(40074632, -), CAediting_50424(40074636, -), CAediting_50425(40074642, -), CAediting_50426(40074644, -), CAediting_50427(40074662, -), CAediting_50428(40074668, -), CAediting_50429(40074672, -), CAediting_50430(40074696, -), CAediting_50431(40074701, -), CAediting_50432(40074706, -), CAediting_50433(40074719, -), CAediting_50434(40074750, -), CAediting_50435(40075010, -), CAediting_50436(40075011, -), CAediting_50437(40075111, -), CAediting_50438(40075139, -), CAediting_50439(40075155, -), CAediting_50440(40075173, -), CAediting_50441(40075204, -), CAediting_50442(40075217, -), CAediting_50443(40075247, -), CAediting_50444(40075249, -), CAediting_50445(40075909, -), CAediting_50446(40075922, -), CAediting_50447(40076282, -), CAediting_50448(40076389, -), CAediting_50449(40088275, -), CAediting_50450(40088284, -), CAediting_50451(40088310, -), CAediting_50452(40088311, -), CAediting_50453(40089165, -), CAediting_50454(40089175, -),

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RNA editing positional annotations for PPT1 using Annovar

Protein coding RNA editing(s).

CAeditome ID

Position

Variant type

ENST

NTchange

AAchange

SIFT_score

Polyphen2_HVAR_score

PROVEAN_pred

Gene structure information of RNA editing(s).

CAeditome ID	Position	Variant type
CAediting_50403	chr1_40073859_-	ncRNA_exonic
CAediting_50404	chr1_40074474_-	ncRNA_intronic
CAediting_50405	chr1_40074478_-	ncRNA_intronic
CAediting_50406	chr1_40074497_-	ncRNA_intronic
CAediting_50407	chr1_40074498_-	ncRNA_intronic
CAediting_50408	chr1_40074510_-	ncRNA_intronic
CAediting_50409	chr1_40074533_-	ncRNA_intronic
CAediting_50410	chr1_40074535_-	ncRNA_intronic
CAediting_50411	chr1_40074540_-	ncRNA_intronic
CAediting_50412	chr1_40074544_-	ncRNA_intronic
CAediting_50413	chr1_40074556_-	ncRNA_intronic
CAediting_50414	chr1_40074559_-	ncRNA_intronic
CAediting_50415	chr1_40074561_-	ncRNA_intronic
CAediting_50416	chr1_40074565_-	ncRNA_intronic
CAediting_50417	chr1_40074573_-	ncRNA_intronic
CAediting_50418	chr1_40074596_-	ncRNA_intronic
CAediting_50419	chr1_40074600_-	ncRNA_intronic
CAediting_50420	chr1_40074605_-	ncRNA_intronic
CAediting_50421	chr1_40074616_-	ncRNA_intronic
CAediting_50422	chr1_40074628_-	ncRNA_intronic
CAediting_50423	chr1_40074632_-	ncRNA_intronic
CAediting_50424	chr1_40074636_-	ncRNA_intronic
CAediting_50425	chr1_40074642_-	ncRNA_intronic
CAediting_50426	chr1_40074644_-	ncRNA_intronic
CAediting_50427	chr1_40074662_-	ncRNA_intronic
CAediting_50428	chr1_40074668_-	ncRNA_intronic
CAediting_50429	chr1_40074672_-	ncRNA_intronic
CAediting_50430	chr1_40074696_-	ncRNA_intronic
CAediting_50431	chr1_40074701_-	ncRNA_intronic
CAediting_50432	chr1_40074706_-	ncRNA_intronic
CAediting_50433	chr1_40074719_-	ncRNA_intronic
CAediting_50434	chr1_40074750_-	ncRNA_intronic
CAediting_50435	chr1_40075010_-	ncRNA_intronic
CAediting_50436	chr1_40075011_-	ncRNA_intronic
CAediting_50437	chr1_40075111_-	ncRNA_intronic
CAediting_50438	chr1_40075139_-	ncRNA_intronic
CAediting_50439	chr1_40075155_-	ncRNA_intronic
CAediting_50440	chr1_40075173_-	ncRNA_intronic
CAediting_50441	chr1_40075204_-	ncRNA_intronic
CAediting_50442	chr1_40075217_-	ncRNA_intronic
CAediting_50443	chr1_40075247_-	ncRNA_intronic
CAediting_50444	chr1_40075249_-	ncRNA_intronic
CAediting_50445	chr1_40075909_-	ncRNA_intronic
CAediting_50446	chr1_40075922_-	ncRNA_intronic
CAediting_50447	chr1_40076282_-	ncRNA_intronic
CAediting_50448	chr1_40076389_-	ncRNA_intronic
CAediting_50449	chr1_40088275_-	intronic
CAediting_50450	chr1_40088284_-	intronic
CAediting_50451	chr1_40088310_-	intronic
CAediting_50452	chr1_40088311_-	intronic
CAediting_50453	chr1_40089165_-	intronic
CAediting_50454	chr1_40089175_-	intronic

Repat-regional RNA editing(s).

CAeditome ID	Position	Repeat family	Repeat sub family	Repeat name
CAediting_50404	chr1_40074474_-	SINE	Alu	AluSc8
CAediting_50405	chr1_40074478_-	SINE	Alu	AluSc8
CAediting_50406	chr1_40074497_-	SINE	Alu	AluSc8
CAediting_50407	chr1_40074498_-	SINE	Alu	AluSc8
CAediting_50408	chr1_40074510_-	SINE	Alu	AluSc8
CAediting_50409	chr1_40074533_-	SINE	Alu	AluSc8
CAediting_50410	chr1_40074535_-	SINE	Alu	AluSc8
CAediting_50411	chr1_40074540_-	SINE	Alu	AluSc8
CAediting_50412	chr1_40074544_-	SINE	Alu	AluSc8
CAediting_50413	chr1_40074556_-	SINE	Alu	AluSc8
CAediting_50414	chr1_40074559_-	SINE	Alu	AluSc8
CAediting_50415	chr1_40074561_-	SINE	Alu	AluSc8
CAediting_50416	chr1_40074565_-	SINE	Alu	AluSc8
CAediting_50417	chr1_40074573_-	SINE	Alu	AluSc8
CAediting_50418	chr1_40074596_-	SINE	Alu	AluSc8
CAediting_50419	chr1_40074600_-	SINE	Alu	AluSc8
CAediting_50420	chr1_40074605_-	SINE	Alu	AluSc8
CAediting_50421	chr1_40074616_-	SINE	Alu	AluSc8
CAediting_50422	chr1_40074628_-	SINE	Alu	AluSc8
CAediting_50423	chr1_40074632_-	SINE	Alu	AluSc8
CAediting_50424	chr1_40074636_-	SINE	Alu	AluSc8
CAediting_50425	chr1_40074642_-	SINE	Alu	AluSc8
CAediting_50426	chr1_40074644_-	SINE	Alu	AluSc8
CAediting_50427	chr1_40074662_-	SINE	Alu	AluSc8
CAediting_50428	chr1_40074668_-	SINE	Alu	AluSc8
CAediting_50429	chr1_40074672_-	SINE	Alu	AluSc8
CAediting_50430	chr1_40074696_-	SINE	Alu	AluSc8
CAediting_50431	chr1_40074701_-	SINE	Alu	AluSc8
CAediting_50432	chr1_40074706_-	SINE	Alu	AluSc8
CAediting_50433	chr1_40074719_-	SINE	Alu	AluSc8
CAediting_50434	chr1_40074750_-	SINE	Alu	AluSc8
CAediting_50435	chr1_40075010_-	SINE	Alu	AluSq2
CAediting_50436	chr1_40075011_-	SINE	Alu	AluSq2
CAediting_50437	chr1_40075111_-	SINE	Alu	AluSq2
CAediting_50438	chr1_40075139_-	SINE	Alu	AluSq2
CAediting_50439	chr1_40075155_-	SINE	Alu	AluSq2
CAediting_50440	chr1_40075173_-	SINE	Alu	AluSq2
CAediting_50441	chr1_40075204_-	SINE	Alu	AluSq2
CAediting_50442	chr1_40075217_-	SINE	Alu	AluSq2
CAediting_50443	chr1_40075247_-	SINE	Alu	AluSq2
CAediting_50444	chr1_40075249_-	SINE	Alu	AluSq2
CAediting_50445	chr1_40075909_-	SINE	Alu	AluSx
CAediting_50446	chr1_40075922_-	SINE	Alu	AluSx
CAediting_50447	chr1_40076282_-	SINE	Alu	AluSx
CAediting_50448	chr1_40076389_-	SINE	Alu	AluSx
CAediting_50449	chr1_40088275_-	SINE	Alu	AluSg
CAediting_50450	chr1_40088284_-	SINE	Alu	AluSg
CAediting_50451	chr1_40088310_-	SINE	Alu	AluSg
CAediting_50452	chr1_40088311_-	SINE	Alu	AluSg
CAediting_50453	chr1_40089165_-	SINE	Alu	AluSp
CAediting_50454	chr1_40089175_-	SINE	Alu	AluSp

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RNA A-to-I editing events in the alternative splicing sites for PPT1

RNA A-to-I editing(s) in the alternative splicing sites.

AStype

CAeditomID

Editing position

AS position

AS direction

Exonic location

Wildtype sequence

Wildtype splicing strength

RNA edited sequence

RNA edited splicing strength

Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000131238.15.PPT1.

Correlation between RNA A-to-I editing and PSI for ENSG00000131238.15.PPT1.

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Differntial gene expression between RNA A-to-I edited versus non-edited samples for PPT1

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

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

- 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 PPT1

- 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 PPT1

**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.

RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_50403	chr1_40073859_-	ENSG00000131238.15	ENST00000529905	hsa-miR-20a-3p	40073859	40073865	7mer-m8	40073858	40073878	147.00	-14.81

RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in lncRNA gained miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in lncRNA lost miRNA binding sites.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs gained binding to lncRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs lost binding to lncRNA.

CAeditom_ID

Position

ENSG

ENST

miRNA

Targetscan start

Targetscan end

Targetscan score

Miranda start

Miranda end

Miranda score

Miranda energy

RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_77128	chr1_85133844_+	ENSG00000131238.15	ENST00000529905	hsa-miR-4423-3p	40073760	40073766	7mer-m8	40073759	40073779	140	-13.88
CAediting_1229414	chr17_67471546_+	ENSG00000131238.15	ENST00000529905	hsa-miR-548aa	40073264	40073270	7mer-m8	40073263	40073287	156	-12.36
CAediting_1229415	chr17_67471547_+	ENSG00000131238.15	ENST00000529905	hsa-miR-548aa	40073229	40073236	8mer-1a	40073229	40073254	147	-10.76

RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA.

CAeditom_ID	Position	ENSG	ENST	miRNA	Targetscan start	Targetscan end	Targetscan score	Miranda start	Miranda end	Miranda score	Miranda energy
CAediting_228905	chr2_188297554_+	ENSG00000131238.15	ENST00000529905	hsa-miR-561-3p	40073825	40073831	7mer-m8	40073824	40073847	144	-5.39

Differentially expressed gene-miRNA network

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The effects of the RNA editing to the stability of the RNA structures for PPT1

- RNA A-to-I editing in mRNA.
* Click on the image to enlarge it in a new window.

ENST	ENST type	RNA structure without RNA A-to-I editing.	RNA structure with RNA A-to-I editing.
ENST00000372775.2	processed_transcript
ENST00000433473.6	protein_coding
ENST00000449045.5	protein_coding
ENST00000529905.4	nonsense_mediated_decay
ENST00000530704.4	nonsense_mediated_decay

RNA A-to-I editing in RNA structures for Minimum free energy (MFE).

CAeditom_ID	ENST	Editing_Position	MFE_withoneAI	MFE_withoutAI	MFE_withmultipleAI
CAediting_50403	ENST00000372775.2	chr1_40073859_-	-156.90	-156.70	-156.90
CAediting_50403	ENST00000433473.6	chr1_40073859_-	-876.50	-876.30	-876.50
CAediting_50403	ENST00000449045.5	chr1_40073859_-	-279.90	-279.70	-279.90
CAediting_50403	ENST00000529905.4	chr1_40073859_-	-545.00	-544.80	-545.00
CAediting_50403	ENST00000530704.4	chr1_40073859_-	-423.00	-422.80	-423.00

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Relation with ADAR for PPT1

Correlation between ADAR gene expression and RNA editing frequency

Cancer

CAeditomID

position

ADAR1 (p-val)

ADAR1 (coeff.)

ADAR2 (p-val)

ADAR2 (coeff.)

ADAR3 (p-val)

ADAR3 (coeff.)

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Relation with cancer stages for PPT1

Correlation between Cancer stages and RNA editing frequency

Cancer

Stage_type

CAeditomID

position

P-val

Coeff.

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Relation with survival for PPT1

Correlation between RNA editing and survival

Cancer

CAeditomID

position

KMpvalue

Coxpvalue

CoxHR

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RelatedDrugs for PPT1

Approved drugs targeting this gene.
(DrugBank Version 5.1.8 2021-01-03)

Gene	UniProtAcc	DrugBank ID	Drug name	Drug activity	Drug type	Drug status
PPT1	P50897	DB03796	Palmitic Acid	Palmitoyl-protein thioesterase 1	SmallMoleculeDrug	approved

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RelatedDiseases for PPT1

Diseases associated with this gene.
(DisGeNet 7.0)

Gene	Disease ID	Disease name	# pubmeds	Source
PPT1	C1850451	CEROID LIPOFUSCINOSIS, NEURONAL, 1	8	CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT
PPT1	C2931673	Ceroid lipofuscinosis, neuronal 1, infantile	3	CTD_human

	Gene summary
	RNA A-to-I events
	Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples
	Protein coding region RNA A-to-I editings
	The effects of the RNA editing to the miRNA binding sites
	The effects of the RNA editing to the stability of the RNA structures
	Relation with ADAR
	Relation with cancer stages
	Relation with survival state
	Related drugs with this gene
	Related diseases with this gene