Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Lysosomal Pro-X carboxypeptidase.

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 g16731 g16731.t3 TTS g16731.t3 10729561 10729561
chr_4 g16731 g16731.t3 isoform g16731.t3 10729832 10731321
chr_4 g16731 g16731.t3 exon g16731.t3.exon1 10729832 10729998
chr_4 g16731 g16731.t3 cds g16731.t3.CDS1 10729832 10729998
chr_4 g16731 g16731.t3 exon g16731.t3.exon2 10730056 10730828
chr_4 g16731 g16731.t3 cds g16731.t3.CDS2 10730056 10730494
chr_4 g16731 g16731.t3 exon g16731.t3.exon3 10730892 10731321
chr_4 g16731 g16731.t3 TSS g16731.t3 10731399 10731399

Sequences

>g16731.t3 Gene=g16731 Length=1370
ATGAAGTTAATCTTCATTTTCACTTTAGTTTTTGCTGCTGTTAATTGTTATAAATATACA
GTGAAAACTATTGATGTGCTTCTTGATCATTTTACATTCACTGATAATGTAACTTTTCCA
CTTCGCTATTTAATCAATGATTCATTTGTCAAAGACCATAGGTCACCAATTCTTTTTTAT
ACTGGCAATGAAGGTGATATTGAATTATTTGCTGAAAATACAGGCTTTGTATGGAAAGTG
GGTGAGGAACTTGGAGCGATAATCGTTTTTGCTGAACATCGATATTATGGTAAAAGTTTG
CCATTTGGAAATCAATCATATTCAGATCCACGACATTTGGGTTATTTAACATCAGAACAA
GCTTTAGCTGATTTTGCAGATTTAATTGAATTTCTTAACATTGATCGAGTTCGGCCAGTT
ATTTGTTTTGTTATGGAGGAATGTTATCAGCATGGATGCGACTCAAATATCCTCATCTTG
TTGTTGGTGCCTTAGCTTCATCAGCTCCAGTTCGACAATTTACTGATGTTGTCCCTTGTG
ACATTTTCAATCGAATTCTCACTGGTGTTTTCGGTGTTGCTCTTAATACAACTCATTGTG
TTGACAATATTAAAAAACTTTGGCCTGTTCTTCAAAATTTCACATCAAATGATGCTGGAA
GGAAATTTTTAAATACAGAATTTAAATTTTGCAAACCAATCAACAAGACTGAAGATTTTG
AGACATTTTATGATTTTTTGCAAGATGTTTTTGGAAATCTTGCAATGGCAAATTATCCAT
ATGAAGCTAATTTTTTAGCTCCATTGCCAGCTTATCCAGTTAGAGAATTTTGTGGACAAA
TGAATAACAAATATGACAAAAATGAAGACTTGTTGACTGCTTTCAATGTTGCTCTTCAAG
TTTATACAAATTACACAGGAAAAGTAAAATGTTTGGACATTTCTTCAGCCTATGACACAT
CAATGGGTTCACAAGGATGGGATTTTCAAGCTTGTACTGAAATGGTTATGCCAATGTGTG
CTAATGGTACAACTGACATGTTTATGCCTAAAAAATGGGATTTCAAAGAATTTGCTGCCG
ATTGTTATAAGAAATTTCAAGTTTTTCCAAGAGAAAAATGTGCAATTGCTCAATATGGAG
CATGGAAATTTGATACGATGTCTAATGTGATTTTCTCGAATGGTCTTTTAGATCCATGGA
GTGGTGGTGGAGTTTTAAGAAGTTCAAATCCAGCAGTTGGTGTCATCATTATTCCAGATA
GTGCTCATCATTTTGATTTAAGAGCTGACCATAAAGATGATACAAAAAATATTAAATGGG
CTAGAAAATATTACATTGAAAAGTTCAAGGAATGGATTGAAACTTATTAA

>g16731.t3 Gene=g16731 Length=201
MANYPYEANFLAPLPAYPVREFCGQMNNKYDKNEDLLTAFNVALQVYTNYTGKVKCLDIS
SAYDTSMGSQGWDFQACTEMVMPMCANGTTDMFMPKKWDFKEFAADCYKKFQVFPREKCA
IAQYGAWKFDTMSNVIFSNGLLDPWSGGGVLRSSNPAVGVIIIPDSAHHFDLRADHKDDT
KNIKWARKYYIEKFKEWIETY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g16731.t3 Gene3D G3DSA:1.20.120.980 - 1 97 0
4 g16731.t3 Gene3D G3DSA:3.40.50.1820 - 66 198 0
2 g16731.t3 PANTHER PTHR11010 PROTEASE S28 PRO-X CARBOXYPEPTIDASE-RELATED 1 201 0
3 g16731.t3 PANTHER PTHR11010:SF97 LYSOSOMAL PRO-X CARBOXYPEPTIDASE 1 201 0
1 g16731.t3 Pfam PF05577 Serine carboxypeptidase S28 1 188 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:0006508 proteolysis BP
GO:0008236 serine-type peptidase activity MF

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