Gene loci information

Transcript annotation

  • This transcript has been annotated as Lysosomal thioesterase PPT2-like protein.

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 g15371 g15371.t2 isoform g15371.t2 5145589 5149830
chr_4 g15371 g15371.t2 exon g15371.t2.exon1 5145589 5145649
chr_4 g15371 g15371.t2 exon g15371.t2.exon2 5146876 5147043
chr_4 g15371 g15371.t2 cds g15371.t2.CDS1 5146900 5147043
chr_4 g15371 g15371.t2 exon g15371.t2.exon3 5147281 5147530
chr_4 g15371 g15371.t2 cds g15371.t2.CDS2 5147281 5147530
chr_4 g15371 g15371.t2 exon g15371.t2.exon4 5147622 5147760
chr_4 g15371 g15371.t2 cds g15371.t2.CDS3 5147622 5147760
chr_4 g15371 g15371.t2 exon g15371.t2.exon5 5149227 5149339
chr_4 g15371 g15371.t2 cds g15371.t2.CDS4 5149227 5149339
chr_4 g15371 g15371.t2 exon g15371.t2.exon6 5149610 5149830
chr_4 g15371 g15371.t2 cds g15371.t2.CDS5 5149610 5149830
chr_4 g15371 g15371.t2 TTS g15371.t2 5149938 5149938
chr_4 g15371 g15371.t2 TSS g15371.t2 NA NA

Sequences

>g15371.t2 Gene=g15371 Length=952
AATATTGATGCAAAAACAAAAGTTTATTCTTCAGTTGGTTCTTTGTTTATTTACTTCTTA
CTAGTTTTTATTGAAATCAGCTGAAATGCATAAAAAAAATTTTATTTTTAAATTCTTAGA
ATTTTTAATTTTGTTAACATGTTGTTGTGCTTATAAACCAGTGGTATTATTACATGGTAT
TCTTTCTGATGCTACTAGTATGATAATTATTGCAGAACGCATTAAATTGCATCATCCTGG
AACAGAAGTTTACTTAATTGACAAATTTAATAATTGGGGAAGTCTTGAAAATGCTTTAAG
TCAAATTGATTCATTTTTTGATGATTTTGACGAAATTTTCAAAAAGCATCCTGAAGGAGT
ACACGTTCTTGGTTATTCACAAGGTGGACTTTTAGCCAGAGCTTTAATTCAATTTTATAA
AAATCACAATGTTAAGAAATTTATTTCACTGAGCAGTCCACAAGCTGGTCAATTTGGATC
TGCTTTCCTTCATTTAATTTTTCCTACACTGGTTGCTAACAATGCTTATGAACTTTTTTA
TTCTCGTCTTGGCCAAAGAACTTCAGTTGGCAATTATTGGAATGATCCCCATCAAAGACC
TTTGTATCTTAAATATAGTAATTTTCTACCTTATGTAAATAATGAAATCTTATGTACAAA
TTCTTCACAATTTCGTGATAATCTATTAAAGCTAGAAAAAATGATTCTCATTGGTGGTCC
TGATGATGGTGTAATAACTCCATGGGAAAGCGCACATTTTGGTTTTTATGATCAAAATTT
AACAGTAATACCTTTAAGAGAGCGACAATTTTATGTAGAAGATGCAATTGGTTTAAAGAC
TTTAGACGAACAAAAGAAACTTGAACTTGTGACTGTTCCACATATTATACATATAGCATG
GCACTTAAATGTAACGCTCATCGATGAAATCATCGTTCCTAGATTAGACTGA

>g15371.t2 Gene=g15371 Length=288
MHKKNFIFKFLEFLILLTCCCAYKPVVLLHGILSDATSMIIIAERIKLHHPGTEVYLIDK
FNNWGSLENALSQIDSFFDDFDEIFKKHPEGVHVLGYSQGGLLARALIQFYKNHNVKKFI
SLSSPQAGQFGSAFLHLIFPTLVANNAYELFYSRLGQRTSVGNYWNDPHQRPLYLKYSNF
LPYVNNEILCTNSSQFRDNLLKLEKMILIGGPDDGVITPWESAHFGFYDQNLTVIPLRER
QFYVEDAIGLKTLDEQKKLELVTVPHIIHIAWHLNVTLIDEIIVPRLD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g15371.t2 Gene3D G3DSA:3.40.50.1820 - 22 288 1.1E-84
2 g15371.t2 PANTHER PTHR11247 PALMITOYL-PROTEIN THIOESTERASE/DOLICHYLDIPHOSPHATASE 1 15 287 2.5E-103
3 g15371.t2 PANTHER PTHR11247:SF27 LYSOSOMAL THIOESTERASE PPT2 15 287 2.5E-103
1 g15371.t2 Pfam PF02089 Palmitoyl protein thioesterase 25 266 2.5E-63
8 g15371.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
9 g15371.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
10 g15371.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 17 -
11 g15371.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 22 -
7 g15371.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 288 -
4 g15371.t2 SUPERFAMILY SSF53474 alpha/beta-Hydrolases 23 273 6.28E-68
5 g15371.t2 SignalP_EUK SignalP-TM SignalP-TM 1 22 -

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:0016790 thiolester hydrolase activity MF
GO:0008474 palmitoyl-(protein) hydrolase activity MF

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.

Raw TPM values