General information for g13907.t23
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serine protease snake.
Parent gene
- The parent gene g13907 is located on chr_1: 33256459..33257071 (+ 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_1 | g13907 | g13907.t23 | isoform | g13907.t23 | 33256459 | 33257071 |
| chr_1 | g13907 | g13907.t23 | exon | g13907.t23.exon1 | 33256459 | 33256709 |
| chr_1 | g13907 | g13907.t23 | cds | g13907.t23.CDS1 | 33256460 | 33256709 |
| chr_1 | g13907 | g13907.t23 | exon | g13907.t23.exon2 | 33256851 | 33256965 |
| chr_1 | g13907 | g13907.t23 | cds | g13907.t23.CDS2 | 33256851 | 33256965 |
| chr_1 | g13907 | g13907.t23 | exon | g13907.t23.exon3 | 33257026 | 33257071 |
| chr_1 | g13907 | g13907.t23 | cds | g13907.t23.CDS3 | 33257026 | 33257071 |
| chr_1 | g13907 | g13907.t23 | TTS | g13907.t23 | 33257197 | 33257197 |
| chr_1 | g13907 | g13907.t23 | TSS | g13907.t23 | NA | NA |
Sequences
>g13907.t23 Gene=g13907 Length=412
ATCCATTAGACCCGCTTGTTTGTGGCAGACAAGCAGTGTCAATTTCACGAAGTTGATCGC
TTGTGGCTGGGGTGCTCTTGAGTATGCTTCTCAGACGAGTGATGAGTTGAGAAAAGTTGA
ACTTGACGTTGTCAATAATACTTTATGTAATCAACTGTTAAGGGAATCATTGGCTCTTTC
TAATAATAAATTGATTGGTGACTCACAGTTATGTGCTGGATTACTTAAGGGCGGTAAAGA
TACGTGTCAAGGACCACTTCATGTTTCAATTCGTGATGGAAATCCTTGCCAATTTCATAT
AGTTGGTATAACAAGTTATGGATCAATTCTCTGTGGAACTCCAAATACTCCTGCTGTTTA
TACTAGAGTTTCTGCTTATTTGGATTGGATTGAAAGCATCGTATGGCGATAG
>g13907.t23 Gene=g13907 Length=136
SIRPACLWQTSSVNFTKLIACGWGALEYASQTSDELRKVELDVVNNTLCNQLLRESLALS
NNKLIGDSQLCAGLLKGGKDTCQGPLHVSIRDGNPCQFHIVGITSYGSILCGTPNTPAVY
TRVSAYLDWIESIVWR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13907.t23 | Gene3D | G3DSA:2.40.10.10 | - | 1 | 135 | 0.000000 |
| 2 | g13907.t23 | PANTHER | PTHR24260:SF130 | GH18608P-RELATED | 2 | 133 | 0.000000 |
| 3 | g13907.t23 | PANTHER | PTHR24260 | - | 2 | 133 | 0.000000 |
| 1 | g13907.t23 | Pfam | PF00089 | Trypsin | 2 | 130 | 0.000000 |
| 7 | g13907.t23 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 1 | 135 | 14.886000 |
| 5 | g13907.t23 | SMART | SM00020 | trypsin_2 | 1 | 130 | 0.000025 |
| 4 | g13907.t23 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 2 | 135 | 0.000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
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