General information for g16629.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin 3A1.
Parent gene
- The parent gene g16629 is located on chr_4: 10318323..10318846 (+ 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 | g16629 | g16629.t4 | TSS | g16629.t4 | 10317513 | 10317513 |
| chr_4 | g16629 | g16629.t4 | isoform | g16629.t4 | 10317528 | 10318846 |
| chr_4 | g16629 | g16629.t4 | exon | g16629.t4.exon1 | 10317528 | 10317684 |
| chr_4 | g16629 | g16629.t4 | cds | g16629.t4.CDS1 | 10317528 | 10317684 |
| chr_4 | g16629 | g16629.t4 | exon | g16629.t4.exon2 | 10317853 | 10317894 |
| chr_4 | g16629 | g16629.t4 | cds | g16629.t4.CDS2 | 10317853 | 10317894 |
| chr_4 | g16629 | g16629.t4 | exon | g16629.t4.exon3 | 10317948 | 10318173 |
| chr_4 | g16629 | g16629.t4 | cds | g16629.t4.CDS3 | 10317948 | 10318173 |
| chr_4 | g16629 | g16629.t4 | exon | g16629.t4.exon4 | 10318322 | 10318476 |
| chr_4 | g16629 | g16629.t4 | cds | g16629.t4.CDS4 | 10318322 | 10318476 |
| chr_4 | g16629 | g16629.t4 | exon | g16629.t4.exon5 | 10318596 | 10318697 |
| chr_4 | g16629 | g16629.t4 | cds | g16629.t4.CDS5 | 10318596 | 10318697 |
| chr_4 | g16629 | g16629.t4 | exon | g16629.t4.exon6 | 10318791 | 10318846 |
| chr_4 | g16629 | g16629.t4 | cds | g16629.t4.CDS6 | 10318791 | 10318846 |
| chr_4 | g16629 | g16629.t4 | TTS | g16629.t4 | 10319022 | 10319022 |
Sequences
>g16629.t4 Gene=g16629 Length=738
ATGGCTTTTAAATTTCCATTTTTGCTGATATTTACAACTTTTTTCTTTTTTGTACAAGCA
GAAAGAGATCATAAAATTGTTGGTGGATCTACAGTTGATATTTCATCTTATCCATTTATG
GTTTCTGTTCAAAATAGAGGACGACATATTTGTGGAGGTTCCATTATAAAACCAAGATAT
GCCTTAACTGCAGCACATTGTTTATATGGAGGTTCAGCTTCATCATTTAGTGTTCGATCT
GATACATCTTTCAGAAATATGGGTGGAAGACTTCACAAAGCTAAAAGTATTAAAATTAAT
CCACAATATAACTCAAAAACTCATGATTATGATTCGGGTGTTATTGAAATTGGTGGTACT
TTTAGTGCTAACCCAGTACAGCTTGCAACTGTTTTGCCATCGAGTGGAAGCAGTGTCACA
GCAATTGGTTGGGGTGAATTAATAGAAAATGGTCCTTTACCTTTTAAATTACAAGCAGTT
GGACTAAATTTGATATCACAAGATCAATGTTCAAGATATTATCGTTCACATACATTTACT
GCTAGAATGATTTGTGCAGGAGTTAACGGTGGAGGAAAAGATTCTTTCTTTGCATTTTAT
TCAGGTGGTCCACTTATTTCTAATGGAAATTTAATCGGCATCACATCTTTTGGTATTGGT
TGTGCTCGAGCAAATTATCCAGGTGTCTACTCAAATGTGCCAAGTTTATATAAATGGATC
AACGATGCAACACCATAA
>g16629.t4 Gene=g16629 Length=245
MAFKFPFLLIFTTFFFFVQAERDHKIVGGSTVDISSYPFMVSVQNRGRHICGGSIIKPRY
ALTAAHCLYGGSASSFSVRSDTSFRNMGGRLHKAKSIKINPQYNSKTHDYDSGVIEIGGT
FSANPVQLATVLPSSGSSVTAIGWGELIENGPLPFKLQAVGLNLISQDQCSRYYRSHTFT
ARMICAGVNGGGKDSFFAFYSGGPLISNGNLIGITSFGIGCARANYPGVYSNVPSLYKWI
NDATP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g16629.t4 | CDD | cd00190 | Tryp_SPc | 26 | 242 | 5.24587E-76 |
| 6 | g16629.t4 | Gene3D | G3DSA:2.40.10.10 | - | 26 | 234 | 3.9E-56 |
| 7 | g16629.t4 | Gene3D | G3DSA:2.40.10.10 | - | 38 | 235 | 3.9E-56 |
| 2 | g16629.t4 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 19 | 242 | 4.0E-61 |
| 3 | g16629.t4 | PANTHER | PTHR24276:SF78 | AT20289P-RELATED | 19 | 242 | 4.0E-61 |
| 1 | g16629.t4 | Pfam | PF00089 | Trypsin | 26 | 240 | 2.6E-47 |
| 9 | g16629.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 10 | g16629.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 11 | g16629.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 16 | - |
| 12 | g16629.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 20 | - |
| 8 | g16629.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 245 | - |
| 14 | g16629.t4 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 62 | 67 | - |
| 16 | g16629.t4 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 26 | 245 | 27.053 |
| 15 | g16629.t4 | SMART | SM00020 | trypsin_2 | 25 | 240 | 5.1E-56 |
| 4 | g16629.t4 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 20 | 244 | 8.99E-63 |
| 5 | g16629.t4 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
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