General information for g5458.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5458 is located on chr_2: 9679335..9698759 (- 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 | g5458 | g5458.t9 | TTS | g5458.t9 | 9677650 | 9677650 |
| chr_2 | g5458 | g5458.t9 | isoform | g5458.t9 | 9678387 | 9679335 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon1 | 9678387 | 9678407 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS1 | 9678387 | 9678407 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon2 | 9678468 | 9678514 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS2 | 9678468 | 9678514 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon3 | 9678608 | 9678661 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS3 | 9678608 | 9678661 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon4 | 9678733 | 9678753 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS4 | 9678733 | 9678753 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon5 | 9678820 | 9678942 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS5 | 9678820 | 9678942 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon6 | 9679004 | 9679210 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS6 | 9679004 | 9679210 |
| chr_2 | g5458 | g5458.t9 | exon | g5458.t9.exon7 | 9679278 | 9679335 |
| chr_2 | g5458 | g5458.t9 | cds | g5458.t9.CDS7 | 9679278 | 9679335 |
| chr_2 | g5458 | g5458.t9 | TSS | g5458.t9 | 9679356 | 9679356 |
Sequences
>g5458.t9 Gene=g5458 Length=531
ATGAAAAGAATAATAATCATTGAGTTTGTGATTTTTACGGTGGTTTGGGGTCAAACACCA
TGCACCGTTTCAAAGACAAAACAAGTAGGTGAGTGCATGTTCATTAGTAACTGCCCTGAG
GTTCTTAAAACTTTCAAAGAATCTGGTGAAATGCCGACAATATGTGACCGTGTTCTGCGT
ACTATTTGTTGTCCTTTAAAAACCACTACAACGTCTACAACTACAACAACAACTACTCAT
TCACCTATTCGTATAAGTGTCAAAAAATGTAAAGAATATGGTCAACTGGTGTATGAAAAA
AAAATTGTAAACAGTTCAATTATTGGCGAACCAAGTGTCGTTAAAATGATATCAAAGTGT
AATCACGAATCAGTGCCACTTATTGTTGGTGGTGAAGATGCAAAGGATGGGGAATTCCCT
CACATGGCGTTAATAGGGTTTGGGGATGGCAATAGAATGGAAGATTATCAATGTGGAGGT
TCGATGATTTCTGAACAGTGGATTCTCTCAGCGGCTCATTGTGTCAGTACT
>g5458.t9 Gene=g5458 Length=177
MKRIIIIEFVIFTVVWGQTPCTVSKTKQVGECMFISNCPEVLKTFKESGEMPTICDRVLR
TICCPLKTTTTSTTTTTTTHSPIRISVKKCKEYGQLVYEKKIVNSSIIGEPSVVKMISKC
NHESVPLIVGGEDAKDGEFPHMALIGFGDGNRMEDYQCGGSMISEQWILSAAHCVST
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5458.t9 | Gene3D | G3DSA:2.40.10.10 | - | 128 | 175 | 1.1E-16 |
| 2 | g5458.t9 | PANTHER | PTHR24260:SF107 | EG:BACR7A4.3 PROTEIN-RELATED | 5 | 176 | 1.6E-19 |
| 3 | g5458.t9 | PANTHER | PTHR24260 | - | 5 | 176 | 1.6E-19 |
| 1 | g5458.t9 | Pfam | PF00089 | Trypsin | 128 | 176 | 7.1E-12 |
| 9 | g5458.t9 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 10 | g5458.t9 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g5458.t9 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 12 | g5458.t9 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 17 | - |
| 8 | g5458.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 177 | - |
| 5 | g5458.t9 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 169 | 174 | - |
| 4 | g5458.t9 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 117 | 176 | 3.57E-18 |
| 6 | g5458.t9 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5458/g5458.t9; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5458.t9.fa.iupred3.txt does not exist
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