General information for g3425.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine protease 3.
Parent gene
- The parent gene g3425 is located on chr_3: 25308441..25308886 (- 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_3 | g3425 | g3425.t1 | TTS | g3425.t1 | 25307620 | 25307620 |
| chr_3 | g3425 | g3425.t1 | isoform | g3425.t1 | 25307703 | 25308886 |
| chr_3 | g3425 | g3425.t1 | exon | g3425.t1.exon1 | 25307703 | 25307782 |
| chr_3 | g3425 | g3425.t1 | cds | g3425.t1.CDS1 | 25307703 | 25307782 |
| chr_3 | g3425 | g3425.t1 | exon | g3425.t1.exon2 | 25307873 | 25307962 |
| chr_3 | g3425 | g3425.t1 | cds | g3425.t1.CDS2 | 25307873 | 25307962 |
| chr_3 | g3425 | g3425.t1 | exon | g3425.t1.exon3 | 25308036 | 25308327 |
| chr_3 | g3425 | g3425.t1 | cds | g3425.t1.CDS3 | 25308036 | 25308327 |
| chr_3 | g3425 | g3425.t1 | exon | g3425.t1.exon4 | 25308384 | 25308504 |
| chr_3 | g3425 | g3425.t1 | cds | g3425.t1.CDS4 | 25308384 | 25308504 |
| chr_3 | g3425 | g3425.t1 | exon | g3425.t1.exon5 | 25308573 | 25308775 |
| chr_3 | g3425 | g3425.t1 | cds | g3425.t1.CDS5 | 25308573 | 25308775 |
| chr_3 | g3425 | g3425.t1 | exon | g3425.t1.exon6 | 25308830 | 25308886 |
| chr_3 | g3425 | g3425.t1 | cds | g3425.t1.CDS6 | 25308830 | 25308886 |
| chr_3 | g3425 | g3425.t1 | TSS | g3425.t1 | 25308935 | 25308935 |
Sequences
>g3425.t1 Gene=g3425 Length=843
ATGGAAAAGTTTTTACTTTTATTAACAATTATTTTATTTTTTGCTGTTATCTTAGAAGCT
GGTGTAACACATGTGCTACCTAATCAATTGCCATTATTCGAAAGAAAAGTGCAAGGAAGA
ATTGTCGGTGGTTCGCGACCAAGTACAACTCAATTTCCCTATACAGTGTCAGTTCGCGCA
TTTAATGGAACATCAACCTCGTTTTGCGGTGGTTCTATAATTTCTTACAATTTTGTTCTG
ACTGCTGCACATTGCACTCGTGGCTATCAAGATTTCGAAATTGGTGTAGGCTCAATAGTT
CTTCAAACTCCATTTTTTAAAATACTAACTTATGGTGGAGCAATAGAACATCCATATTTT
AATCCAACAAATTTAAATAATGACATTTCACTCATAGAAGTTCCAACTATTGCCCAAAAT
GTTCCGTCTGTTGTTCCAGTTTTACTTCCTAAAAGATCACAAGCCGATAAACCTTTTATT
GGAATGCAAGTGACAGTATCAGGATTTGGAAGAACATCGGACGCATCACAAAGTGTTTCA
CCATTCATGGAATATGTTCAACTAAAAATTATCTCTAATAAAGATTGTGCAGGAACATAT
GGTAGAAGAATTGTTACTGATGATGTTATTTGTGCTAAGGGAATTGATAAAAACTTTAAT
GCTTGTATTGGAGATTCAGGAGGTCCTTTAACAATGAAAGAAGCAGGAAATCATGTTCAA
CTTGGTATTGTGTCTTTTGTTAGTTCAAGAGGCTGTGCTATTGGTGATCCTTCAGGTTAT
ACAAAAGTAGGAAAATATCTCGATTGGATTTCTGCCAAAACTGGAATAATAATTCGCAAT
TAA
>g3425.t1 Gene=g3425 Length=280
MEKFLLLLTIILFFAVILEAGVTHVLPNQLPLFERKVQGRIVGGSRPSTTQFPYTVSVRA
FNGTSTSFCGGSIISYNFVLTAAHCTRGYQDFEIGVGSIVLQTPFFKILTYGGAIEHPYF
NPTNLNNDISLIEVPTIAQNVPSVVPVLLPKRSQADKPFIGMQVTVSGFGRTSDASQSVS
PFMEYVQLKIISNKDCAGTYGRRIVTDDVICAKGIDKNFNACIGDSGGPLTMKEAGNHVQ
LGIVSFVSSRGCAIGDPSGYTKVGKYLDWISAKTGIIIRN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g3425.t1 | CDD | cd00190 | Tryp_SPc | 41 | 271 | 3.40737E-61 |
| 9 | g3425.t1 | Gene3D | G3DSA:2.40.10.10 | - | 33 | 275 | 6.0E-57 |
| 2 | g3425.t1 | PANTHER | PTHR24260 | - | 35 | 276 | 4.1E-62 |
| 3 | g3425.t1 | PANTHER | PTHR24260:SF90 | AT07769P-RELATED | 35 | 276 | 4.1E-62 |
| 6 | g3425.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 70 | 85 | 1.5E-11 |
| 5 | g3425.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 124 | 138 | 1.5E-11 |
| 4 | g3425.t1 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 219 | 231 | 1.5E-11 |
| 1 | g3425.t1 | Pfam | PF00089 | Trypsin | 41 | 270 | 5.9E-46 |
| 11 | g3425.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 12 | g3425.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g3425.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 14 | g3425.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 10 | g3425.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 280 | - |
| 18 | g3425.t1 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 80 | 85 | - |
| 19 | g3425.t1 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 220 | 231 | - |
| 20 | g3425.t1 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 41 | 275 | 26.769 |
| 17 | g3425.t1 | SMART | SM00020 | trypsin_2 | 40 | 270 | 5.0E-54 |
| 7 | g3425.t1 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 4 | 275 | 5.77E-65 |
| 8 | g3425.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 16 | g3425.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 27 | - |
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