General information for g16608.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Chymotrypsin BI.
Parent gene
- The parent gene g16608 is located on chr_4: 10214818..10215366 (+ 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 | g16608 | g16608.t4 | isoform | g16608.t4 | 10214456 | 10215366 |
| chr_4 | g16608 | g16608.t4 | exon | g16608.t4.exon1 | 10214456 | 10214901 |
| chr_4 | g16608 | g16608.t4 | cds | g16608.t4.CDS1 | 10214481 | 10214901 |
| chr_4 | g16608 | g16608.t4 | exon | g16608.t4.exon2 | 10214953 | 10215045 |
| chr_4 | g16608 | g16608.t4 | cds | g16608.t4.CDS2 | 10214953 | 10215045 |
| chr_4 | g16608 | g16608.t4 | exon | g16608.t4.exon3 | 10215299 | 10215366 |
| chr_4 | g16608 | g16608.t4 | cds | g16608.t4.CDS3 | 10215299 | 10215366 |
| chr_4 | g16608 | g16608.t4 | TTS | g16608.t4 | 10215505 | 10215505 |
| chr_4 | g16608 | g16608.t4 | TSS | g16608.t4 | NA | NA |
Sequences
>g16608.t4 Gene=g16608 Length=607
AGCTCATTGTGTCTATATTCCTTTCATGAAAGTAGCAGTATATCTTGGAATCATTGATTC
TTACTATGGTCCAGCATATTGGGGCGCAGATGTGACTTCAACAGATGTAAAAATCCATTC
AGGTTACAATGACAATTACCTTACCAATGATATTGCTATGATTTATTTGAGAACTGCAAC
TGAATCAATTCTTAATGCTTACATTGGAACCATTCCATTGCCTAAAAGTCATGTCAATAC
GAATTTAGATGGAAGGAGTTCAATTGTGAGTGGTTTTGGCAAGACAAGTGATAACAGTAC
TTCATCGCAATTTTTAAAATATGTTCAACTCTATATAACTTCCAATTCAGTTTGTGAACA
AGTCTATGGACCAAATTATGTCAGAGATACAAACATTTGTGTTGCAACAACAAATACTGC
GGCCACTTGTTCAGGAGATTCTGGAGGACCATTGACCACTGTTCTTGATGGAACAAATTA
TGTTGTTGGAATCGTTTCGTTTGGTGCTGCTATTTCATGTGAAATGGGCTATCCTGCTGG
ATTCACAAGAGTCACAAGCTTCATTGGATGGATAGAAGATCGATTCACTTTACCACCAGC
ATTCTAA
>g16608.t4 Gene=g16608 Length=193
MKVAVYLGIIDSYYGPAYWGADVTSTDVKIHSGYNDNYLTNDIAMIYLRTATESILNAYI
GTIPLPKSHVNTNLDGRSSIVSGFGKTSDNSTSSQFLKYVQLYITSNSVCEQVYGPNYVR
DTNICVATTNTAATCSGDSGGPLTTVLDGTNYVVGIVSFGAAISCEMGYPAGFTRVTSFI
GWIEDRFTLPPAF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16608.t4 | CDD | cd00190 | Tryp_SPc | 5 | 185 | 3.87968E-44 |
| 6 | g16608.t4 | Gene3D | G3DSA:2.40.10.10 | - | 3 | 184 | 1.9E-39 |
| 5 | g16608.t4 | Gene3D | G3DSA:2.40.10.10 | - | 64 | 179 | 1.9E-39 |
| 2 | g16608.t4 | PANTHER | PTHR24250:SF56 | SERINE PROTEASE P96 | 23 | 187 | 4.5E-40 |
| 3 | g16608.t4 | PANTHER | PTHR24250 | CHYMOTRYPSIN-RELATED | 23 | 187 | 4.5E-40 |
| 1 | g16608.t4 | Pfam | PF00089 | Trypsin | 23 | 183 | 6.8E-29 |
| 8 | g16608.t4 | ProSitePatterns | PS00135 | Serine proteases, trypsin family, serine active site. | 133 | 144 | - |
| 10 | g16608.t4 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 1 | 188 | 18.03 |
| 9 | g16608.t4 | SMART | SM00020 | trypsin_2 | 2 | 183 | 1.4E-19 |
| 4 | g16608.t4 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 185 | 3.14E-43 |
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