General information for g4559.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Trypsin 5G1.
Parent gene
- The parent gene g4559 is located on chr_2: 3237898..3240235 (+ 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 | g4559 | g4559.t3 | TSS | g4559.t3 | 3236817 | 3236817 |
| chr_2 | g4559 | g4559.t3 | isoform | g4559.t3 | 3236844 | 3237898 |
| chr_2 | g4559 | g4559.t3 | exon | g4559.t3.exon1 | 3236844 | 3237539 |
| chr_2 | g4559 | g4559.t3 | cds | g4559.t3.CDS1 | 3237219 | 3237539 |
| chr_2 | g4559 | g4559.t3 | exon | g4559.t3.exon2 | 3237596 | 3237635 |
| chr_2 | g4559 | g4559.t3 | cds | g4559.t3.CDS2 | 3237596 | 3237635 |
| chr_2 | g4559 | g4559.t3 | exon | g4559.t3.exon3 | 3237687 | 3237782 |
| chr_2 | g4559 | g4559.t3 | cds | g4559.t3.CDS3 | 3237687 | 3237782 |
| chr_2 | g4559 | g4559.t3 | exon | g4559.t3.exon4 | 3237840 | 3237898 |
| chr_2 | g4559 | g4559.t3 | cds | g4559.t3.CDS4 | 3237840 | 3237898 |
| chr_2 | g4559 | g4559.t3 | TTS | g4559.t3 | 3238027 | 3238027 |
Sequences
>g4559.t3 Gene=g4559 Length=891
ATGAAATTTTTCAAGCTTTTAATTTTAATTTTATCAGTTTTTAAATTTAGTAAAGCTAGA
GAAAGATCGACTGATGGTAGAATTGTAGGTGGAAAAGAAATTGATATTGAAACAGCTCCT
TTTCAAGTCGGATTATTATTATATGGAGGACATATATGTGGTGGAAGTATTTTGTCGTGT
AAATATGTTTTGACTGCTTCACATTGTGAGTTCTCGTAATTTATAAAATGCAATATGATT
TTTTTTATAAGATTCTTTTAATAGGCATTGAAACTTATACACCATCAATATATAGTGGTT
AGCAAAATATTCATTTTTGTCTAATTTTTATTAATTAATTAAAAATTTTTTAAAACAGTT
CGTGCAGGTTCTTCAATGAGAGAATCAGGTGGTTCAATACATGATGTCAGTAGAATTGAC
ATTCATCCACTTTGGAATCCAAATTTATATGATTATGATGCTGCTATTTTGACATTAAGA
AATCTTATTAGATATGATGCATCACGACAAGCAATTCAATTACCTTTTTTGAATGAAGTA
ATTTTTGTTGGTACTGATGTTGCTACATCTGGCTGGGGACTGACACAGAATGATAATGAA
TCCAGAGATAATTTGCGAATGGTTGAATTGAAAGTTGTAAATCAAATTTTATGCAATAAT
GCTCATTTAAAAGATGGTGGTGTAACATTGAGAATGGTTTGTGCTGCTGCTGATAATAAA
GATAGCTGCAATGGAGATAGCGGCGGACCTCTATGGAACATAAGAACAAGAAGACTTATC
GGAATCGTTTCATTTGGTCAAGATACTGGATGCGCTATAAACGGAATCCCAGGTGTTTAC
ACAAGAGTTGCTGCAATAAGACCTTGGATAAGAACGATTGTGGGTTTTTAA
>g4559.t3 Gene=g4559 Length=171
MRESGGSIHDVSRIDIHPLWNPNLYDYDAAILTLRNLIRYDASRQAIQLPFLNEVIFVGT
DVATSGWGLTQNDNESRDNLRMVELKVVNQILCNNAHLKDGGVTLRMVCAAADNKDSCNG
DSGGPLWNIRTRRLIGIVSFGQDTGCAINGIPGVYTRVAAIRPWIRTIVGF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g4559.t3 | CDD | cd00190 | Tryp_SPc | 2 | 168 | 0.000 |
| 7 | g4559.t3 | Gene3D | G3DSA:2.40.10.10 | - | 6 | 165 | 0.000 |
| 6 | g4559.t3 | Gene3D | G3DSA:2.40.10.10 | - | 47 | 159 | 0.000 |
| 2 | g4559.t3 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 3 | 167 | 0.000 |
| 3 | g4559.t3 | PANTHER | PTHR24276:SF83 | GH13245P2-RELATED | 3 | 167 | 0.000 |
| 1 | g4559.t3 | Pfam | PF00089 | Trypsin | 6 | 165 | 0.000 |
| 8 | g4559.t3 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 1 | 170 | 20.472 |
| 5 | g4559.t3 | SMART | SM00020 | trypsin_2 | 2 | 165 | 0.000 |
| 4 | g4559.t3 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 3 | 170 | 0.000 |
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