General information for g4558.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin-3.
Parent gene
- The parent gene g4558 is located on chr_2: 3235587..3236652 (+ 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_2 | g4558 | g4558.t3 | TSS | g4558.t3 | 3235559 | 3235559 |
| chr_2 | g4558 | g4558.t3 | isoform | g4558.t3 | 3235587 | 3236652 |
| chr_2 | g4558 | g4558.t3 | exon | g4558.t3.exon1 | 3235587 | 3235800 |
| chr_2 | g4558 | g4558.t3 | cds | g4558.t3.CDS1 | 3235587 | 3235800 |
| chr_2 | g4558 | g4558.t3 | exon | g4558.t3.exon2 | 3235855 | 3235890 |
| chr_2 | g4558 | g4558.t3 | cds | g4558.t3.CDS2 | 3235855 | 3235890 |
| chr_2 | g4558 | g4558.t3 | exon | g4558.t3.exon3 | 3235942 | 3236274 |
| chr_2 | g4558 | g4558.t3 | cds | g4558.t3.CDS3 | 3235942 | 3236274 |
| chr_2 | g4558 | g4558.t3 | exon | g4558.t3.exon4 | 3236338 | 3236377 |
| chr_2 | g4558 | g4558.t3 | cds | g4558.t3.CDS4 | 3236338 | 3236354 |
| chr_2 | g4558 | g4558.t3 | exon | g4558.t3.exon5 | 3236438 | 3236533 |
| chr_2 | g4558 | g4558.t3 | exon | g4558.t3.exon6 | 3236594 | 3236652 |
| chr_2 | g4558 | g4558.t3 | TTS | g4558.t3 | 3236809 | 3236809 |
Sequences
>g4558.t3 Gene=g4558 Length=778
ATGAGATCGCTTTGGTTGATCTTGATTTTTGTACTTTCTGCGTTGATCTCAAAATGTAAT
AGTAGAGAAGCAAGAGCAATTAGTGGTAGAATTGTTGGAGGTGTTGAAGTCGATATTGAA
AAAATTCCTTATCAAGTTTCTTTACTATATTACGATTCTTTAGCATGTGGTGCAAGCATT
TTAAGTTGCAAATTTGTTTTAACAGCTGCTCATTGTTTTCGTGGAGTACTTATTGTTTCA
TCATATACTGTTCGTGCAGGATCTTCCACTTTTTTTGAGGGTGGTTCTATACATGATGTC
AGTAAAATTGATATCCATCCACAATATAATAGAACACTTTTAGATTATGATGCTGCAATT
TTGACTTTAAGAAATCTCATCAAATATGATGCTACAAGACAAGCAATTCAATTACCTTTT
TTGAATGAAGTAATTCCTGAAGGGACAGCTGTTATAACTTCTGGTTGGGGACTAACACAA
AATTTTAATGAATCAAGTTATGTTTTACGAATGGTTGAACTTAAAGTAACAAATCAAGCA
CAATGTAATATTATATTTTTAGGAGATGGTGGAATTACAACTCCTTTGTGCTGGTGCTGA
TGGAAAAGACAGTTGTGAAGGAGATAGTGGTGGACCGCTTCAACATGCTGTTTCAAAAAA
ACTTGTTGGAATAGTCTCATTTGGGCAATCAGGTGGTTGTGCTCAAAAAGGAATACCAGG
TGTTTACACAAGAGTTGCAGCAATAAGAACTTGGATACGCGAAATTGTCGAAATTTAA
>g4558.t3 Gene=g4558 Length=199
MRSLWLILIFVLSALISKCNSREARAISGRIVGGVEVDIEKIPYQVSLLYYDSLACGASI
LSCKFVLTAAHCFRGVLIVSSYTVRAGSSTFFEGGSIHDVSKIDIHPQYNRTLLDYDAAI
LTLRNLIKYDATRQAIQLPFLNEVIPEGTAVITSGWGLTQNFNESSYVLRMVELKVTNQA
QCNIIFLGDGGITTPLCWC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g4558.t3 | CDD | cd00190 | Tryp_SPc | 31 | 193 | 5.66181E-44 |
| 6 | g4558.t3 | Gene3D | G3DSA:2.40.10.10 | - | 32 | 183 | 4.5E-36 |
| 7 | g4558.t3 | Gene3D | G3DSA:2.40.10.10 | - | 43 | 135 | 4.5E-36 |
| 2 | g4558.t3 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 20 | 194 | 9.6E-44 |
| 3 | g4558.t3 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 20 | 194 | 9.6E-44 |
| 1 | g4558.t3 | Pfam | PF00089 | Trypsin | 31 | 184 | 1.0E-29 |
| 9 | g4558.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 21 | - |
| 10 | g4558.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g4558.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 16 | - |
| 12 | g4558.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 21 | - |
| 8 | g4558.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 22 | 199 | - |
| 14 | g4558.t3 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 67 | 72 | - |
| 16 | g4558.t3 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 31 | 199 | 17.528 |
| 15 | g4558.t3 | SMART | SM00020 | trypsin_2 | 30 | 199 | 6.3E-18 |
| 4 | g4558.t3 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 14 | 190 | 3.24E-45 |
| 5 | g4558.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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.
