General information for g13907.t4
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.t4 | TSS | g13907.t4 | 33254844 | 33254844 |
| chr_1 | g13907 | g13907.t4 | isoform | g13907.t4 | 33254871 | 33257071 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon1 | 33254871 | 33254940 |
| chr_1 | g13907 | g13907.t4 | cds | g13907.t4.CDS1 | 33254871 | 33254940 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon2 | 33255198 | 33255374 |
| chr_1 | g13907 | g13907.t4 | cds | g13907.t4.CDS2 | 33255198 | 33255374 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon3 | 33255851 | 33255967 |
| chr_1 | g13907 | g13907.t4 | cds | g13907.t4.CDS3 | 33255851 | 33255967 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon4 | 33256023 | 33256049 |
| chr_1 | g13907 | g13907.t4 | cds | g13907.t4.CDS4 | 33256023 | 33256049 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon5 | 33256100 | 33256383 |
| chr_1 | g13907 | g13907.t4 | cds | g13907.t4.CDS5 | 33256100 | 33256383 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon6 | 33256450 | 33256709 |
| chr_1 | g13907 | g13907.t4 | cds | g13907.t4.CDS6 | 33256450 | 33256467 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon7 | 33256842 | 33256965 |
| chr_1 | g13907 | g13907.t4 | exon | g13907.t4.exon8 | 33257026 | 33257071 |
| chr_1 | g13907 | g13907.t4 | TTS | g13907.t4 | 33257197 | 33257197 |
Sequences
>g13907.t4 Gene=g13907 Length=1105
ATGATCATTAGAAATCGAGTTTGTATTTTACTTCAAATTCTCTGCTGTGCATTTGTAAAT
TCTCAACTCGTGGGAGAAGAGTGTATCAGAGATTACGACAATGCACGAGGTATTTGTGTT
TCGCATAGAGAATGCAAAAGAGCGAGAGAAGAACATGCATTGGGAATTCCGTTGACTTAT
TGTTCGTTTTTGGATGGCGTGACGAACATTTGTTGTCCGCAATTTGAAAAAAGAAAAAGT
GCATCAAAATGTGAAGAATATGGGGATCTAACAAAGAAGAAAGATTGTGTGTGGACGAGT
TTAATTCAGAATCATGAACCGCAATGTTTTGAAACTTTCACATGCAATCCAAGCACACCA
CTGATTTATGGTGGTGATATTGCAAAAGGAGGTGAATTTCCTCATATGGTTGCAATTGGA
TGGCAAAAATTGAATACAATTTCATTTGATTGTGGTGGAAGTTTGATTTCTGAACGTTAT
GTTCTAACAGCAGCGCATTGTGAAAAATCTGACAATATAAGGCCATCATTTGTAAGACTT
GGCGATCAAAATGTGAAAACACGTGATGATGGAATGATAGAAATTGACATTGCTATAGAA
GATTTTATTGTTCACCAAGATTATTCATCAATAACTCATAAAAATGATATTGCCCTCATT
AGAATGGCACAAGAAATTCTCAGAATCCATTAGACCCGCTTGTTTGTGGCAGACAAGCAG
TGTCAATTTCACGAAGTTGATCGCTTGTGGCTGGGGTGCTCTTGAGTATGCTTCTCAGAC
GAGTGATGAGTTGAGAAAAGTTGAACTTGACGTTGTCAATAATACTTTATGTAATCAACT
GTTAAGGGAATCATTGGCTCTTTCTAATAATAAATTGATTGGTGACTCACAGTTATGTGC
TGGATTACTTAAGGGCGGTAAAGATACGTGTCAAGTTTCTTCAGGACCACTTCATGTTTC
AATTCGTGATGGAAATCCTTGCCAATTTCATATAGTTGGTATAACAAGTTATGGATCAAT
TCTCTGTGGAACTCCAAATACTCCTGCTGTTTATACTAGAGTTTCTGCTTATTTGGATTG
GATTGAAAGCATCGTATGGCGATAG
>g13907.t4 Gene=g13907 Length=230
MIIRNRVCILLQILCCAFVNSQLVGEECIRDYDNARGICVSHRECKRAREEHALGIPLTY
CSFLDGVTNICCPQFEKRKSASKCEEYGDLTKKKDCVWTSLIQNHEPQCFETFTCNPSTP
LIYGGDIAKGGEFPHMVAIGWQKLNTISFDCGGSLISERYVLTAAHCEKSDNIRPSFVRL
GDQNVKTRDDGMIEIDIAIEDFIVHQDYSSITHKNDIALIRMAQEILRIH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13907.t4 | Gene3D | G3DSA:2.40.10.10 | - | 116 | 229 | 6.3E-30 |
| 2 | g13907.t4 | PANTHER | PTHR24260:SF107 | EG:BACR7A4.3 PROTEIN-RELATED | 6 | 226 | 2.5E-36 |
| 3 | g13907.t4 | PANTHER | PTHR24260 | - | 6 | 226 | 2.5E-36 |
| 4 | g13907.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 152 | 167 | 2.5E-8 |
| 5 | g13907.t4 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 212 | 226 | 2.5E-8 |
| 1 | g13907.t4 | Pfam | PF00089 | Trypsin | 122 | 225 | 7.3E-20 |
| 10 | g13907.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 25 | - |
| 11 | g13907.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 6 | - |
| 12 | g13907.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 7 | 18 | - |
| 13 | g13907.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 25 | - |
| 9 | g13907.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 26 | 230 | - |
| 14 | g13907.t4 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 162 | 167 | - |
| 16 | g13907.t4 | ProSiteProfiles | PS51888 | Clip domain profile. | 27 | 72 | 6.65 |
| 15 | g13907.t4 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 122 | 230 | 12.034 |
| 6 | g13907.t4 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 114 | 226 | 2.36E-31 |
| 7 | g13907.t4 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 21 | - |
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