General information for g4459.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Palmitoyl-protein thioesterase 1.
Parent gene
- The parent gene g4459 is located on chr_2: 2692499..2694427 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_2 | g4459 | g4459.t1 | TSS | g4459.t1 | 2692460 | 2692460 |
| chr_2 | g4459 | g4459.t1 | isoform | g4459.t1 | 2692499 | 2694427 |
| chr_2 | g4459 | g4459.t1 | exon | g4459.t1.exon1 | 2692499 | 2692619 |
| chr_2 | g4459 | g4459.t1 | cds | g4459.t1.CDS1 | 2692499 | 2692619 |
| chr_2 | g4459 | g4459.t1 | exon | g4459.t1.exon2 | 2692709 | 2692854 |
| chr_2 | g4459 | g4459.t1 | cds | g4459.t1.CDS2 | 2692709 | 2692854 |
| chr_2 | g4459 | g4459.t1 | exon | g4459.t1.exon3 | 2693655 | 2693743 |
| chr_2 | g4459 | g4459.t1 | cds | g4459.t1.CDS3 | 2693655 | 2693743 |
| chr_2 | g4459 | g4459.t1 | exon | g4459.t1.exon4 | 2693813 | 2693974 |
| chr_2 | g4459 | g4459.t1 | cds | g4459.t1.CDS4 | 2693813 | 2693974 |
| chr_2 | g4459 | g4459.t1 | exon | g4459.t1.exon5 | 2694028 | 2694427 |
| chr_2 | g4459 | g4459.t1 | cds | g4459.t1.CDS5 | 2694028 | 2694427 |
| chr_2 | g4459 | g4459.t1 | TTS | g4459.t1 | NA | NA |
Sequences
>g4459.t1 Gene=g4459 Length=918
ATGCCGCGATATAGAGTGAAGTTTGATTTTATTAACTCGATTTTATTTTTATTTGCGACA
TGTGTTATGCAATATGTTCGCGCCGAAAATTATTATCCAATATTGTTATGGCATTCAGCT
GGTGAAACATGTTGTGAAAAAGAAGGAAAACTGTATGTGAATTTTTTAACAAAAGAACTT
GGTGATGTTTATATTAGATCAGTTAAAATAGGAAACACAACAGAAGATGACTTCACTAAT
TCTTTAGTCATGCATCCATTCCAACAGATTGATTATGTTTGCAACAAGCTGAAAAATAAC
GATAAATTCAAAAATGGCTATAATGCGATTGGATTGAGTCAAGGCGCACTATTTCTAAGA
GGCTTAGCTCAAATTTGTCCATTTCCAAAAATGATCAATTTTATTTCACTCGGAGGACCT
CACCAAGGCGTTTTTCAATATCCTCGATGTGAAAAAGCACTAGGGCCATTTAAGTGTCAA
TTATTAAAATTAAAATTTAATATGATTGCATATCATAGAGTATTCCAAAATTCTTTAAGT
CCGTTAACTTATTGGCATGATGATTTAAATGAGTTCCGTTATAAACGTGGAAGTTCCTTT
CTAGCACATATAAATAATGAGAATTATTATAATGCAGATTATGTGAAAAATTTACAAGAA
CTTAAACGACTTGTGCTCGTAAAATACGTGAAAGATCTTTCTGTAATTCCAAACGAGTCA
ACACAATTTGGTTTTCGGGATCACAATGGAAGGTCAATAAAACTCGAAGAGACAGATTTA
TTTCAGAATGATCGACTTGGTTTGAAAAAGATGAAGCAAGATGGCAAATTAATATTGCTA
GATGCACCATATGAACATTTAGTATTAGATGAAAATTGGTTTAGAGAAAATATTGTGCCG
ATTCTTAAAGAAAATTAA
>g4459.t1 Gene=g4459 Length=305
MPRYRVKFDFINSILFLFATCVMQYVRAENYYPILLWHSAGETCCEKEGKLYVNFLTKEL
GDVYIRSVKIGNTTEDDFTNSLVMHPFQQIDYVCNKLKNNDKFKNGYNAIGLSQGALFLR
GLAQICPFPKMINFISLGGPHQGVFQYPRCEKALGPFKCQLLKLKFNMIAYHRVFQNSLS
PLTYWHDDLNEFRYKRGSSFLAHINNENYYNADYVKNLQELKRLVLVKYVKDLSVIPNES
TQFGFRDHNGRSIKLEETDLFQNDRLGLKKMKQDGKLILLDAPYEHLVLDENWFRENIVP
ILKEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4459.t1 | Gene3D | G3DSA:3.40.50.1820 | - | 21 | 305 | 3.1E-81 |
| 2 | g4459.t1 | PANTHER | PTHR11247 | PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1 | 17 | 303 | 2.2E-66 |
| 3 | g4459.t1 | PANTHER | PTHR11247:SF8 | PALMITOYL-PROTEIN THIOESTERASE 1 | 17 | 303 | 2.2E-66 |
| 7 | g4459.t1 | PRINTS | PR00414 | Palmitoyl protein thioesterase signature | 25 | 47 | 1.1E-19 |
| 6 | g4459.t1 | PRINTS | PR00414 | Palmitoyl protein thioesterase signature | 64 | 83 | 1.1E-19 |
| 5 | g4459.t1 | PRINTS | PR00414 | Palmitoyl protein thioesterase signature | 104 | 120 | 1.1E-19 |
| 8 | g4459.t1 | PRINTS | PR00414 | Palmitoyl protein thioesterase signature | 184 | 203 | 1.1E-19 |
| 4 | g4459.t1 | PRINTS | PR00414 | Palmitoyl protein thioesterase signature | 279 | 297 | 1.1E-19 |
| 1 | g4459.t1 | Pfam | PF02089 | Palmitoyl protein thioesterase | 33 | 286 | 1.9E-63 |
| 12 | g4459.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 28 | - |
| 13 | g4459.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 12 | - |
| 14 | g4459.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 13 | 23 | - |
| 15 | g4459.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 24 | 28 | - |
| 11 | g4459.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 29 | 305 | - |
| 9 | g4459.t1 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 29 | 302 | 5.75E-59 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0098599 | palmitoyl hydrolase activity | MF |
| GO:0008474 | palmitoyl-(protein) hydrolase activity | MF |
| GO:0002084 | protein depalmitoylation | BP |
KEGG
Orthology
- This transcript has been annotated with K01074 (palmitoyl-protein thioesterase)
Pathway
- This transcript belongs to the following pathways
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed