General information for g16398.t38
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BII.
Parent gene
- The parent gene g16398 is located on chr_4: 9341613..9346552 (+ 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 | g16398 | g16398.t38 | TSS | g16398.t38 | 9340829 | 9340829 |
| chr_4 | g16398 | g16398.t38 | isoform | g16398.t38 | 9340865 | 9342001 |
| chr_4 | g16398 | g16398.t38 | exon | g16398.t38.exon1 | 9340865 | 9341122 |
| chr_4 | g16398 | g16398.t38 | cds | g16398.t38.CDS1 | 9340865 | 9341122 |
| chr_4 | g16398 | g16398.t38 | exon | g16398.t38.exon2 | 9341214 | 9341364 |
| chr_4 | g16398 | g16398.t38 | cds | g16398.t38.CDS2 | 9341214 | 9341364 |
| chr_4 | g16398 | g16398.t38 | exon | g16398.t38.exon3 | 9341430 | 9341554 |
| chr_4 | g16398 | g16398.t38 | cds | g16398.t38.CDS3 | 9341430 | 9341554 |
| chr_4 | g16398 | g16398.t38 | exon | g16398.t38.exon4 | 9341613 | 9341767 |
| chr_4 | g16398 | g16398.t38 | cds | g16398.t38.CDS4 | 9341613 | 9341767 |
| chr_4 | g16398 | g16398.t38 | exon | g16398.t38.exon5 | 9341830 | 9342001 |
| chr_4 | g16398 | g16398.t38 | cds | g16398.t38.CDS5 | 9341830 | 9342001 |
| chr_4 | g16398 | g16398.t38 | TTS | g16398.t38 | 9342130 | 9342130 |
Sequences
>g16398.t38 Gene=g16398 Length=861
ATGAAACTCTTGCTTCTCGCACTTTTCGCTGCTGTGGCACTTGCCCAGGAAAACTATGAT
GGACCAGAATACGCTCCATTTGATGCCTCAGAAATCATCCCAGTTGAAGATTTCCCAGGT
TTCTGGACAATCGTGAATTCCCAAAAGAAGTTTTCACACCAAATCCACGTGCCTCAAGAA
TTGTCGGTGGTGTTGAAGTTGTTCCACACAGCCATCCATACCAAGTTGCCCTTCACATGC
AATTCGGTACTGGCACTGGCTGCTCATTGTCCAATTGGTTCAAGCTCAACCTTGGTCATT
GCTGGTGCTCACAACAGAAATGTCGTTGAACCAAATCAACAACGTCGTACTGTTCCATCA
TCAGGCTACCGCATCCACGCCAACTACAACCCATCAAACTTGAACAATGATATCGCTATC
CTCATCACACCAACACCAAACTTTGCCTTCGGTGCACATGTTCAAGCCGCTCGTATGCCA
ACTGCTTTTGCTAGTGAACTTTTCGTCGGTGAAACTGCCCGCTCAACTGGATGGGGAAGA
ACAACTAACACTGGTGCAACCTCAGCTGTCCTTCGTAAGGCTTACAATCCAGTCATTACT
AATGCTGCTTGCTCAGCTGTCTATGGTGGATCAGTTGTAATTGCTTCAGTCATTTGCATT
GCTACAAGCGGTGTCAACCAAGGAACATGCAACGGTGACTCAGGCGGTGTCCTTTCAGTT
CCAAGAGCTGGAGATACTCGTCCAATCCAAATTGGTGTTACATCATTCGTCGCTGCAGCT
GGTTGCGTTGCTGGATTCCCATCAGGCTTCGCAAGAGTTACATCATTCCTTACCTGGATT
AACAACAACCAAAATCCATAA
>g16398.t38 Gene=g16398 Length=286
MKLLLLALFAAVALAQENYDGPEYAPFDASEIIPVEDFPGFWTIVNSQKKFSHQIHVPQE
LSVVLKLFHTAIHTKLPFTCNSVLALAAHCPIGSSSTLVIAGAHNRNVVEPNQQRRTVPS
SGYRIHANYNPSNLNNDIAILITPTPNFAFGAHVQAARMPTAFASELFVGETARSTGWGR
TTNTGATSAVLRKAYNPVITNAACSAVYGGSVVIASVICIATSGVNQGTCNGDSGGVLSV
PRAGDTRPIQIGVTSFVAAAGCVAGFPSGFARVTSFLTWINNNQNP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g16398.t38 | CDD | cd00190 | Tryp_SPc | 87 | 283 | 1.92664E-49 |
| 7 | g16398.t38 | Gene3D | G3DSA:2.40.10.10 | - | 87 | 280 | 4.1E-39 |
| 6 | g16398.t38 | Gene3D | G3DSA:2.40.10.10 | - | 157 | 274 | 4.1E-39 |
| 2 | g16398.t38 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 82 | 282 | 1.2E-53 |
| 3 | g16398.t38 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 82 | 282 | 1.2E-53 |
| 1 | g16398.t38 | Pfam | PF00089 | Trypsin | 87 | 280 | 6.9E-32 |
| 9 | g16398.t38 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 15 | - |
| 10 | g16398.t38 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g16398.t38 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 10 | - |
| 12 | g16398.t38 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 11 | 15 | - |
| 8 | g16398.t38 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 16 | 286 | - |
| 15 | g16398.t38 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 228 | 239 | - |
| 17 | g16398.t38 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 44 | 285 | 19.092 |
| 16 | g16398.t38 | SMART | SM00020 | trypsin_2 | 43 | 280 | 2.4E-30 |
| 4 | g16398.t38 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 87 | 284 | 5.36E-44 |
| 5 | g16398.t38 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
| 14 | g16398.t38 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 15 | - |
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