General information for g17225.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin-4.
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.t17 | TTS | g17225.t17 | 12873922 | 12873922 |
| chr_4 | g17225 | g17225.t17 | isoform | g17225.t17 | 12874617 | 12876909 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon1 | 12874617 | 12874699 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon2 | 12874825 | 12874879 |
| chr_4 | g17225 | g17225.t17 | cds | g17225.t17.CDS1 | 12874873 | 12874879 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon3 | 12875005 | 12875164 |
| chr_4 | g17225 | g17225.t17 | cds | g17225.t17.CDS2 | 12875005 | 12875164 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon4 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t17 | cds | g17225.t17.CDS3 | 12875221 | 12875466 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon5 | 12875681 | 12875773 |
| chr_4 | g17225 | g17225.t17 | cds | g17225.t17.CDS4 | 12875681 | 12875773 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon6 | 12875828 | 12875905 |
| chr_4 | g17225 | g17225.t17 | cds | g17225.t17.CDS5 | 12875828 | 12875905 |
| chr_4 | g17225 | g17225.t17 | exon | g17225.t17.exon7 | 12876855 | 12876909 |
| chr_4 | g17225 | g17225.t17 | cds | g17225.t17.CDS6 | 12876855 | 12876909 |
| chr_4 | g17225 | g17225.t17 | TSS | g17225.t17 | 12876927 | 12876927 |
Sequences
>g17225.t17 Gene=g17225 Length=770
ATGTTTCAAGTCACTGTTGCCTGTTTAACTTTGATTTTATTAGCAAGTGGAGCTAATGTT
CCTGATGCAACGACAAATGATGAATTCCAAATGTGGGAAGGAAGAATTGTTGGTGGATCA
CAAGCTCAATTAGGTCAATTTCCATATCAAGTCTCGTTGAGAACAATTCAAAATAGTCAT
TTTTGTGGTGGATTCATTCTTAGTAATCGTTGGATTGGATCAGCTGCACATTGCACAACA
CCTCGATCAACATCAAACACACGTGCAGTTGTTGGCACAATTCATCGTTCAACAGGCGGA
AACATTCACAATCTTGCTCGTTTTGTTAATCATCCAGGTTATCAATCAACAACCCTTGCC
AATGATATTTCACTTATTCAAACTGTCAATACAATTACTTTTAACAACATGGTGCAACCT
GTTGGTGTATCATCGACTTTTATTAATGGTGGTGTTAATGCTGTTGCTACAGGTTGGGGA
CAAACCAGCAGGACAGGACCAACTTCAAATGTTCTTCTTTGGGTGACTTTAAGGACATTA
AATAACAATGAATGCAGAGAAAAATTCACAAAATCAAATGCTGCAAGAATTACTGATCAA
ACAATTTGTACATTTACAAGAGTTGGTCAAGGAAATTAAATTATTTTAGCGGTGGTCCTT
TAGTAGCTGGTGGTAATGTCATTGGAGGAATTCCATGTGCTTCCGGATCACCTGATGTTT
ATGTCAGAATTGCATCATATCGATCATGGATTATGAATACCATCGGATAA
>g17225.t17 Gene=g17225 Length=212
MFQVTVACLTLILLASGANVPDATTNDEFQMWEGRIVGGSQAQLGQFPYQVSLRTIQNSH
FCGGFILSNRWIGSAAHCTTPRSTSNTRAVVGTIHRSTGGNIHNLARFVNHPGYQSTTLA
NDISLIQTVNTITFNNMVQPVGVSSTFINGGVNAVATGWGQTSRTGPTSNVLLWVTLRTL
NNNECREKFTKSNAARITDQTICTFTRVGQGN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17225.t17 | CDD | cd00190 | Tryp_SPc | 36 | 210 | 1.82911E-50 |
| 7 | g17225.t17 | Gene3D | G3DSA:2.40.10.10 | - | 30 | 212 | 6.2E-41 |
| 2 | g17225.t17 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 28 | 207 | 1.2E-38 |
| 3 | g17225.t17 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 28 | 207 | 1.2E-38 |
| 1 | g17225.t17 | Pfam | PF00089 | Trypsin | 36 | 206 | 7.5E-35 |
| 9 | g17225.t17 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 10 | g17225.t17 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 11 | g17225.t17 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 13 | - |
| 12 | g17225.t17 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 8 | g17225.t17 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 212 | - |
| 16 | g17225.t17 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 36 | 212 | 19.301 |
| 15 | g17225.t17 | SMART | SM00020 | trypsin_2 | 35 | 211 | 5.1E-23 |
| 4 | g17225.t17 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 209 | 2.08E-47 |
| 6 | g17225.t17 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
| 14 | g17225.t17 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 5 | g17225.t17 | 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