Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Palmitoyl-protein thioesterase 1.

Parent gene

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_4 g15557 g15557.t4 TTS g15557.t4 5852679 5852679
chr_4 g15557 g15557.t4 isoform g15557.t4 5852783 5854008
chr_4 g15557 g15557.t4 exon g15557.t4.exon1 5852783 5853436
chr_4 g15557 g15557.t4 cds g15557.t4.CDS1 5852783 5853214
chr_4 g15557 g15557.t4 exon g15557.t4.exon2 5853543 5853714
chr_4 g15557 g15557.t4 exon g15557.t4.exon3 5853779 5854008
chr_4 g15557 g15557.t4 TSS g15557.t4 5854030 5854030

Sequences

>g15557.t4 Gene=g15557 Length=1056
AGTCTGACCCAAATCGTTTATTTTATTGTTCGATCAAAACTCAGTTCCATAACATTCACA
CAAGAGAGTAAAATAAAAATTGCGGAAGCCAAAAAAGATCAAATTTTAATTTGAATTTCT
TACACAATATCTAAATAGTTATGAGATCAACACCAATTTTGTTGCTCATCATAGTGCTGA
TCTCAACAATTTATGGTAATAATGTGACACAGAATTACACTCCAATTGTGATGTGGCATG
GTATGGGTGACTCATGTTGCTTTCCATTCTCACTTGGTTCAATTAAAAAACTATTGGAGA
GGTCATTAGAAAATAAAGTTTATGTCACATCGTTGGAAATTGGTGGGAGTTATGTGAGAG
ATTATGAATCAGGCTATTTTATTCATCCTGATAAGCAAGTAACTTCAAGATGCATGCAAC
CAAATAGCAAACAATAAAATTCTTTCAAACGGCTTCAATGCAATTGGTTTCTCACAAGGT
TCACAATTTTTACGTGCTTTAGTGCAAAGATGTCCAGCTGCAAAAGTCAAAAATTTGATC
TCACTTGGTGGTCAGCATCAAGGTGTTTATGGACTTCCAAACTGTCCATCATTGACCACA
AAATCATGTGAATACTTTCGTGAAATGTTAAATTATGCTGCTTATACTGGTTGGGTTCAA
AAGCGACTCGTGCAAGCCACTTATTGGCATGATCCAATGAATGAAAATTTGTATAAAAGT
AAAAGTACTTTTTTGGCTGAAATTAATAATGAAAGAAAAATCAATCAAAAATATATTGAT
AGACTACAGAAGCTTGAAAATTTTGTGATGGTTAAATTTTGGAATGACACAATTGTTCAA
CCAGTTGATACACAATGGTTTGGTTTTTATAAGCCAGGCAGTGACAGTGAAACATTGACA
ATGGAAGAGAGCGATATTTACACCAAAGATCGACTTGGATTGAAGAAAATGAAAGAGGAC
GGAAAGATCAAGTTCATTGCGGTTGAAGGCAATCATTTGCAAATTAAGAACGATTGGTTT
ATTGCTAATATCATTGATGTTTATTTGAAGAACTAA

>g15557.t4 Gene=g15557 Length=143
MLNYAAYTGWVQKRLVQATYWHDPMNENLYKSKSTFLAEINNERKINQKYIDRLQKLENF
VMVKFWNDTIVQPVDTQWFGFYKPGSDSETLTMEESDIYTKDRLGLKKMKEDGKIKFIAV
EGNHLQIKNDWFIANIIDVYLKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g15557.t4 Gene3D G3DSA:3.40.50.1820 - 1 143 0
2 g15557.t4 PANTHER PTHR11247 PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1 1 142 0
3 g15557.t4 PANTHER PTHR11247:SF8 PALMITOYL-PROTEIN THIOESTERASE 1 1 142 0
6 g15557.t4 PRINTS PR00414 Palmitoyl protein thioesterase signature 20 39 0
5 g15557.t4 PRINTS PR00414 Palmitoyl protein thioesterase signature 72 90 0
4 g15557.t4 PRINTS PR00414 Palmitoyl protein thioesterase signature 117 135 0
1 g15557.t4 Pfam PF02089 Palmitoyl protein thioesterase 4 124 0
7 g15557.t4 SUPERFAMILY SSF53474 alpha/beta-Hydrolases 1 138 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:0098599 palmitoyl hydrolase activity MF
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.

Raw TPM values