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_2 g4460 g4460.t1 isoform g4460.t1 2695234 2696125
chr_2 g4460 g4460.t1 exon g4460.t1.exon1 2695234 2695370
chr_2 g4460 g4460.t1 cds g4460.t1.CDS1 2695234 2695370
chr_2 g4460 g4460.t1 exon g4460.t1.exon2 2695443 2695541
chr_2 g4460 g4460.t1 cds g4460.t1.CDS2 2695443 2695541
chr_2 g4460 g4460.t1 exon g4460.t1.exon3 2695604 2695657
chr_2 g4460 g4460.t1 cds g4460.t1.CDS3 2695604 2695657
chr_2 g4460 g4460.t1 exon g4460.t1.exon4 2695723 2696125
chr_2 g4460 g4460.t1 cds g4460.t1.CDS4 2695723 2696125
chr_2 g4460 g4460.t1 TSS g4460.t1 NA NA
chr_2 g4460 g4460.t1 TTS g4460.t1 NA NA

Sequences

>g4460.t1 Gene=g4460 Length=693
ATGAGATATGACAAGATCAGAAGTCTCACAATGCATCCATTCGAACAAATAGAAATCGCT
TGCAAATCCATCAAAAATGATACAAAATTTCATAATGGATATAATGCCATTGGATTGAGT
CAAGGCGCATTGCTGTTACGTGGATTGGCACAAACTTGTCCATTTCCAAAAATGAAAAAT
TTCATTTCATTTGGTGGGCCACAACAGGGCATTTATCAGGCAAATCCTCAGACTATTAAA
ATTATGTGTACAACAATTCACTATCAATTGAATGCTTTAATTTACAGCAGACCATCACAA
TATCTGTTGACACCAGCAAGCTATTGGCATGATTTAAATCCGAATCGTTATCAGAAGGGA
AGCACATTTCTGGCAATAATCAACAATGAAAAGGATACAATTATTACTGATTATGCTGAA
AATTTGAAAGCACTCGAGAGATTCGTGATGGTCAAATACGAGAGCGACGAAGCGATTATT
CCGAATGAGTCGACGTTTTTTGGTTATTGGAGTGAGCAAAAGACGTTAATTCGATTAGAA
GAAAGCGAACTGTATAAGCGCGATAAATTGGGTCTAAAGGCAATGAACGAAAATGGACAA
TTGGTATTTTTAGTTAGTCCTGGTGGTCATTTGGAATTAAATGAGGAATGGTTTGTTGAT
AATATTCTGCAATATTTGATAAATACTTCTTAA

>g4460.t1 Gene=g4460 Length=230
MRYDKIRSLTMHPFEQIEIACKSIKNDTKFHNGYNAIGLSQGALLLRGLAQTCPFPKMKN
FISFGGPQQGIYQANPQTIKIMCTTIHYQLNALIYSRPSQYLLTPASYWHDLNPNRYQKG
STFLAIINNEKDTIITDYAENLKALERFVMVKYESDEAIIPNESTFFGYWSEQKTLIRLE
ESELYKRDKLGLKAMNENGQLVFLVSPGGHLELNEEWFVDNILQYLINTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g4460.t1 Gene3D G3DSA:3.40.50.1820 - 1 230 0e+00
2 g4460.t1 PANTHER PTHR11247 PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1 7 226 0e+00
3 g4460.t1 PANTHER PTHR11247:SF8 PALMITOYL-PROTEIN THIOESTERASE 1 7 226 0e+00
5 g4460.t1 PRINTS PR00414 Palmitoyl protein thioesterase signature 31 47 6e-07
4 g4460.t1 PRINTS PR00414 Palmitoyl protein thioesterase signature 203 221 6e-07
1 g4460.t1 Pfam PF02089 Palmitoyl protein thioesterase 4 210 0e+00
6 g4460.t1 SUPERFAMILY SSF53474 alpha/beta-Hydrolases 5 225 0e+00

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

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