General information for g4459.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 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.t2 | TSS | g4459.t2 | 2692460 | 2692460 |
| chr_2 | g4459 | g4459.t2 | isoform | g4459.t2 | 2692499 | 2694427 |
| chr_2 | g4459 | g4459.t2 | exon | g4459.t2.exon1 | 2692499 | 2692619 |
| chr_2 | g4459 | g4459.t2 | exon | g4459.t2.exon2 | 2692709 | 2692858 |
| chr_2 | g4459 | g4459.t2 | exon | g4459.t2.exon3 | 2693655 | 2693743 |
| chr_2 | g4459 | g4459.t2 | exon | g4459.t2.exon4 | 2693813 | 2693974 |
| chr_2 | g4459 | g4459.t2 | cds | g4459.t2.CDS1 | 2693847 | 2693974 |
| chr_2 | g4459 | g4459.t2 | exon | g4459.t2.exon5 | 2694028 | 2694427 |
| chr_2 | g4459 | g4459.t2 | cds | g4459.t2.CDS2 | 2694028 | 2694427 |
| chr_2 | g4459 | g4459.t2 | TTS | g4459.t2 | NA | NA |
Sequences
>g4459.t2 Gene=g4459 Length=922
ATGCCGCGATATAGAGTGAAGTTTGATTTTATTAACTCGATTTTATTTTTATTTGCGACA
TGTGTTATGCAATATGTTCGCGCCGAAAATTATTATCCAATATTGTTATGGCATTCAGCT
GGTGAAACATGTTGTGAAAAAGAAGGAAAACTGTATGTGAATTTTTTAACAAAAGAACTT
GGTGATGTTTATATTAGATCAGTTAAAATAGGAAACACAACAGAAGATGACTTCACTAAT
TCTTTAGTCATGCATCCATTCCAACAGGCAAATTGATTATGTTTGCAACAAGCTGAAAAA
TAACGATAAATTCAAAAATGGCTATAATGCGATTGGATTGAGTCAAGGCGCACTATTTCT
AAGAGGCTTAGCTCAAATTTGTCCATTTCCAAAAATGATCAATTTTATTTCACTCGGAGG
ACCTCACCAAGGCGTTTTTCAATATCCTCGATGTGAAAAAGCACTAGGGCCATTTAAGTG
TCAATTATTAAAATTAAAATTTAATATGATTGCATATCATAGAGTATTCCAAAATTCTTT
AAGTCCGTTAACTTATTGGCATGATGATTTAAATGAGTTCCGTTATAAACGTGGAAGTTC
CTTTCTAGCACATATAAATAATGAGAATTATTATAATGCAGATTATGTGAAAAATTTACA
AGAACTTAAACGACTTGTGCTCGTAAAATACGTGAAAGATCTTTCTGTAATTCCAAACGA
GTCAACACAATTTGGTTTTCGGGATCACAATGGAAGGTCAATAAAACTCGAAGAGACAGA
TTTATTTCAGAATGATCGACTTGGTTTGAAAAAGATGAAGCAAGATGGCAAATTAATATT
GCTAGATGCACCATATGAACATTTAGTATTAGATGAAAATTGGTTTAGAGAAAATATTGT
GCCGATTCTTAAAGAAAATTAA
>g4459.t2 Gene=g4459 Length=175
MINFISLGGPHQGVFQYPRCEKALGPFKCQLLKLKFNMIAYHRVFQNSLSPLTYWHDDLN
EFRYKRGSSFLAHINNENYYNADYVKNLQELKRLVLVKYVKDLSVIPNESTQFGFRDHNG
RSIKLEETDLFQNDRLGLKKMKQDGKLILLDAPYEHLVLDENWFRENIVPILKEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4459.t2 | Gene3D | G3DSA:3.40.50.1820 | - | 1 | 175 | 0 |
| 2 | g4459.t2 | PANTHER | PTHR11247 | PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1 | 1 | 173 | 0 |
| 3 | g4459.t2 | PANTHER | PTHR11247:SF8 | PALMITOYL-PROTEIN THIOESTERASE 1 | 1 | 173 | 0 |
| 1 | g4459.t2 | Pfam | PF02089 | Palmitoyl protein thioesterase | 3 | 156 | 0 |
| 4 | g4459.t2 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 3 | 172 | 0 |
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:0008474 | palmitoyl-(protein) hydrolase activity | MF |
| GO:0002084 | protein depalmitoylation | BP |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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