General information for g17225.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin-3.
Parent gene
- The parent gene g17225 is located on chr_4: 12874617..12876909 (- 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 | g17225 | g17225.t16 | TTS | g17225.t16 | 12873922 | 12873922 |
| chr_4 | g17225 | g17225.t16 | isoform | g17225.t16 | 12874617 | 12876909 |
| chr_4 | g17225 | g17225.t16 | exon | g17225.t16.exon1 | 12874617 | 12874763 |
| chr_4 | g17225 | g17225.t16 | cds | g17225.t16.CDS1 | 12874748 | 12874763 |
| chr_4 | g17225 | g17225.t16 | exon | g17225.t16.exon2 | 12875005 | 12875140 |
| chr_4 | g17225 | g17225.t16 | cds | g17225.t16.CDS2 | 12875005 | 12875140 |
| chr_4 | g17225 | g17225.t16 | exon | g17225.t16.exon3 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t16 | cds | g17225.t16.CDS3 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t16 | exon | g17225.t16.exon4 | 12875681 | 12875773 |
| chr_4 | g17225 | g17225.t16 | cds | g17225.t16.CDS4 | 12875681 | 12875773 |
| chr_4 | g17225 | g17225.t16 | exon | g17225.t16.exon5 | 12875828 | 12875905 |
| chr_4 | g17225 | g17225.t16 | cds | g17225.t16.CDS5 | 12875828 | 12875905 |
| chr_4 | g17225 | g17225.t16 | exon | g17225.t16.exon6 | 12876855 | 12876909 |
| chr_4 | g17225 | g17225.t16 | cds | g17225.t16.CDS6 | 12876855 | 12876909 |
| chr_4 | g17225 | g17225.t16 | TSS | g17225.t16 | 12876927 | 12876927 |
Sequences
>g17225.t16 Gene=g17225 Length=755
ATGTTTCAAGTCACTGTTGCCTGTTTAACTTTGATTTTATTAGCAAGTGGAGCTAATGTT
CCTGATGCAACGACAAATGATGAATTCCAAATGTGGGAAGGAAGAATTGTTGGTGGATCA
CAAGCTCAATTAGGTCAATTTCCATATCAAGTCTCGTTGAGAACAATTCAAAATAGTCAT
TTTTGTGGTGGATTCATTCTTAGTAATCGTTGGATTGGATCAGCTGCACATTGCACAACA
CCTCGATCAACATCAAACACACGTGCAGTTGTTGGCACAATTCATCGTTCAACAGGCGGA
AACATTCACAATCTTGCTCGTTTTGTTAATCATCCAGGTTATCAATCAACAACCCTTGCC
AATGATATTTCACTTATTCAAACTGTCAATACAATTACTTTTAACAACATGGTGCAACCT
GTTGGTGTATCATCGACTTTTATTAATGGTGGTGTTAATGCTGTTGCTACAGGACCAACT
TCAAATGTTCTTCTTTGGGTGACTTTAAGGACATTAAATAACAATGAATGCAGAGAAAAA
TTCACAAAATCAAATGCTGCAAGAATTACTGATCAAACAATTTGTACATTTACAAGAGTT
GGTCAAGGCCGTATCATGGGGTAAGACTTCTTAAAATAATAGAAATGCGATAAATTTCAT
ATTTTGAAATAGGAATTCCATGTGCTTCCGGATCACCTGATGTTTATGTCAGAATTGCAT
CATATCGATCATGGATTATGAATACCATCGGATAA
>g17225.t16 Gene=g17225 Length=207
MFQVTVACLTLILLASGANVPDATTNDEFQMWEGRIVGGSQAQLGQFPYQVSLRTIQNSH
FCGGFILSNRWIGSAAHCTTPRSTSNTRAVVGTIHRSTGGNIHNLARFVNHPGYQSTTLA
NDISLIQTVNTITFNNMVQPVGVSSTFINGGVNAVATGPTSNVLLWVTLRTLNNNECREK
FTKSNAARITDQTICTFTRVGQGRIMG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17225.t16 | CDD | cd00190 | Tryp_SPc | 36 | 202 | 2.06832E-43 |
| 7 | g17225.t16 | Gene3D | G3DSA:2.40.10.10 | - | 30 | 206 | 2.1E-33 |
| 2 | g17225.t16 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 28 | 200 | 8.8E-32 |
| 3 | g17225.t16 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 28 | 200 | 8.8E-32 |
| 1 | g17225.t16 | Pfam | PF00089 | Trypsin | 36 | 199 | 9.6E-29 |
| 9 | g17225.t16 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 10 | g17225.t16 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 11 | g17225.t16 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 13 | - |
| 12 | g17225.t16 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 8 | g17225.t16 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 207 | - |
| 16 | g17225.t16 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 36 | 207 | 16.993 |
| 15 | g17225.t16 | SMART | SM00020 | trypsin_2 | 35 | 205 | 2.4E-13 |
| 4 | g17225.t16 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 202 | 1.18E-42 |
| 6 | g17225.t16 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 14 | g17225.t16 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 5 | g17225.t16 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
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:0004252 | serine-type endopeptidase activity | MF |
| GO:0006508 | proteolysis | 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. There were no conditions that were differentially expressed