General information for g16731.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Lysosomal Pro-X carboxypeptidase.
Parent gene
- The parent gene g16731 is located on chr_4: 10730212..10731321 (- 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_4 | g16731 | g16731.t4 | TTS | g16731.t4 | 10729561 | 10729561 |
| chr_4 | g16731 | g16731.t4 | isoform | g16731.t4 | 10729832 | 10731321 |
| chr_4 | g16731 | g16731.t4 | exon | g16731.t4.exon1 | 10729832 | 10729998 |
| chr_4 | g16731 | g16731.t4 | cds | g16731.t4.CDS1 | 10729832 | 10729998 |
| chr_4 | g16731 | g16731.t4 | exon | g16731.t4.exon2 | 10730056 | 10730849 |
| chr_4 | g16731 | g16731.t4 | cds | g16731.t4.CDS2 | 10730056 | 10730818 |
| chr_4 | g16731 | g16731.t4 | exon | g16731.t4.exon3 | 10730914 | 10731321 |
| chr_4 | g16731 | g16731.t4 | TSS | g16731.t4 | 10731399 | 10731399 |
Sequences
>g16731.t4 Gene=g16731 Length=1369
ATGAAGTTAATCTTCATTTTCACTTTAGTTTTTGCTGCTGTTAATTGTTATAAATATACA
GTGAAAACTATTGATGTGCTTCTTGATCATTTTACATTCACTGATAATGTAACTTTTCCA
CTTCGCTATTTAATCAATGATTCATTTGTCAAAGACCATAGGTCACCAATTCTTTTTTAT
ACTGGCAATGAAGGTGATATTGAATTATTTGCTGAAAATACAGGCTTTGTATGGAAAGTG
GGTGAGGAACTTGGAGCGATAATCGTTTTTGCTGAACATCGATATTATGGTAAAAGTTTG
CCATTTGGAAATCAATCATATTCAGATCCACGACATTTGGGTTATTTAACATCAGAACAA
GCTTTAGCTGATTTTGCAGATTTAATTGAATTTCTTAACATTGATCGATTTAAATTTTAA
AGGTGGAAGTTATGGAGGAATGTTATCAGCATGGATGCGACTCAAATATCCTCATCTTGT
TGTTGGTGCCTTAGCTTCATCAGCTCCAGTTCGACAATTTACTGATGTTGTCCCTTGTGA
CATTTTCAATCGAATTCTCACTGGTGTTTTCGGTGTTGCTCTTAATACAACTCATTGTGT
TGACAATATTAAAAAACTTTGGCCTGTTCTTCAAAATTTCACATCAAATGATGCTGGAAG
GAAATTTTTAAATACAGAATTTAAATTTTGCAAACCAATCAACAAGACTGAAGATTTTGA
GACATTTTATGATTTTTTGCAAGATGTTTTTGGAAATCTTGCAATGGCAAATTATCCATA
TGAAGCTAATTTTTTAGCTCCATTGCCAGCTTATCCAGTTAGAGAATTTTGTGGACAAAT
GAATAACAAATATGACAAAAATGAAGACTTGTTGACTGCTTTCAATGTTGCTCTTCAAGT
TTATACAAATTACACAGGAAAAGTAAAATGTTTGGACATTTCTTCAGCCTATGACACATC
AATGGGTTCACAAGGATGGGATTTTCAAGCTTGTACTGAAATGGTTATGCCAATGTGTGC
TAATGGTACAACTGACATGTTTATGCCTAAAAAATGGGATTTCAAAGAATTTGCTGCCGA
TTGTTATAAGAAATTTCAAGTTTTTCCAAGAGAAAAATGTGCAATTGCTCAATATGGAGC
ATGGAAATTTGATACGATGTCTAATGTGATTTTCTCGAATGGTCTTTTAGATCCATGGAG
TGGTGGTGGAGTTTTAAGAAGTTCAAATCCAGCAGTTGGTGTCATCATTATTCCAGATAG
TGCTCATCATTTTGATTTAAGAGCTGACCATAAAGATGATACAAAAAATATTAAATGGGC
TAGAAAATATTACATTGAAAAGTTCAAGGAATGGATTGAAACTTATTAA
>g16731.t4 Gene=g16731 Length=309
MLSAWMRLKYPHLVVGALASSAPVRQFTDVVPCDIFNRILTGVFGVALNTTHCVDNIKKL
WPVLQNFTSNDAGRKFLNTEFKFCKPINKTEDFETFYDFLQDVFGNLAMANYPYEANFLA
PLPAYPVREFCGQMNNKYDKNEDLLTAFNVALQVYTNYTGKVKCLDISSAYDTSMGSQGW
DFQACTEMVMPMCANGTTDMFMPKKWDFKEFAADCYKKFQVFPREKCAIAQYGAWKFDTM
SNVIFSNGLLDPWSGGGVLRSSNPAVGVIIIPDSAHHFDLRADHKDDTKNIKWARKYYIE
KFKEWIETY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g16731.t4 | Gene3D | G3DSA:3.40.50.1820 | - | 1 | 306 | 1.2E-99 |
| 6 | g16731.t4 | Gene3D | G3DSA:1.20.120.980 | - | 32 | 205 | 1.2E-99 |
| 2 | g16731.t4 | PANTHER | PTHR11010 | PROTEASE S28 PRO-X CARBOXYPEPTIDASE-RELATED | 1 | 309 | 2.7E-104 |
| 3 | g16731.t4 | PANTHER | PTHR11010:SF97 | LYSOSOMAL PRO-X CARBOXYPEPTIDASE | 1 | 309 | 2.7E-104 |
| 1 | g16731.t4 | Pfam | PF05577 | Serine carboxypeptidase S28 | 1 | 296 | 8.7E-50 |
| 8 | g16731.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 26 | - |
| 9 | g16731.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 12 | - |
| 10 | g16731.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 13 | 21 | - |
| 11 | g16731.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 22 | 26 | - |
| 7 | g16731.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 309 | - |
| 4 | g16731.t4 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 53 | 201 | 2.31E-5 |
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