General information for g5458.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Transmembrane protease serine 2.
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.t3 | TTS | g5458.t3 | 9677650 | 9677650 |
| chr_2 | g5458 | g5458.t3 | isoform | g5458.t3 | 9677666 | 9679335 |
| chr_2 | g5458 | g5458.t3 | exon | g5458.t3.exon1 | 9677666 | 9678407 |
| chr_2 | g5458 | g5458.t3 | cds | g5458.t3.CDS1 | 9677937 | 9678407 |
| chr_2 | g5458 | g5458.t3 | exon | g5458.t3.exon2 | 9678468 | 9678514 |
| chr_2 | g5458 | g5458.t3 | cds | g5458.t3.CDS2 | 9678468 | 9678514 |
| chr_2 | g5458 | g5458.t3 | exon | g5458.t3.exon3 | 9678608 | 9678753 |
| chr_2 | g5458 | g5458.t3 | cds | g5458.t3.CDS3 | 9678608 | 9678614 |
| chr_2 | g5458 | g5458.t3 | exon | g5458.t3.exon4 | 9678820 | 9678942 |
| chr_2 | g5458 | g5458.t3 | exon | g5458.t3.exon5 | 9679004 | 9679335 |
| chr_2 | g5458 | g5458.t3 | TSS | g5458.t3 | 9679356 | 9679356 |
Sequences
>g5458.t3 Gene=g5458 Length=1390
ATGAAAAGAATAATAATCATTGAGTTTGTGATTTTTACGGTGGTTTGGGGTCAAACACGT
TAGTTCACATTCTTATCGCTTATTACTCAATTATTGTAATAATATGTGAATTTTTAAATT
CACAGCATGCACCGTTTCAAAGACAAAACAAGTAGGTGAGTGCATGTTCATTAGTAACTG
CCCTGAGGTTCTTAAAACTTTCAAAGAATCTGGTGAAATGCCGACAATATGTGACCGTGT
TCTGCGTACTATTTGTTGTCCTTTAAAAACCACTACAACGTCTACAACTACAACAACAAC
TACTCATTCACCTATTCGTATAAGTGTCAAAAAATGTAAAGAATATGGTCAACTGGTGTA
TGAAAAAAAAATTGTAAACAGTTCAATTATTGGCGAACCAAGTGTCGTTAAAATGATATC
AAAGTGTAATCACGAATCAGTGCCACTTATTGTTGGTGGTGAAGATGCAAAGGATGGTAA
AAAAATTAAAAATTTATTCATTCGTAATCATACAATATAATTGATATTTGACTTTATACT
CTTAAAGGGGAATTCCCTCACATGGCGTTAATAGGGTTTGGGGATGGCAATAGAATGGAA
GATTATCAATGTGGAGGTTCGATGATTTCTGAACAGTGGATTCTCTCAGCGGCTCATTGT
GTCAGTACTGGTGGTTTAACAGCAAATTTTGCAAAAGTTGGTAATGTGGTTCGAGGACGA
GACACATTGAATTCATGGACTTATAAAATAATTCAAAGAATTCCTCATCCAAATTATAAT
TCAAGATTTGCAGATGATGATATTGCATTATTTAAACTTGAAAAACCTGCACAATTAAAT
GTTCATGTTATACCAATTTGTTTACCAGATAAAGAATTACTTACTACAAAATCAGCTATA
GCAAGTGGCTATGGACGTACTGGATTTGCTGATGATGTTAGTGAAAAATTGATGAAAGTT
ATAATTGAATATTTTAAGCCAGCAGATTGTAATGAAGCATTTGCGGATAACACAAAACTT
TCAAATAATCAAATAAATTGGGATAAAATGGTTTGTGCGGGGTCTCATAATAAAACTGGT
GACACTTGTAATGTAAGTATTCTTTGGTTTAATTCATGACATAAAATAATTTTGGAATTT
TTCTTCTTAAATAGGGTGATTCAGGAGGTATGTTTAAAGAGCATAGCATAATATTCTATG
ATAGAATTAATGTTTTATTTTGATAGGTCCATTGCAAATTTATCATTCTGATGTCTATTG
CATGTATAAAATAATTGGTATCACATCCTTTGGTCATGCTTACTGCGGTTTTCCTGGTGT
CCCTGCTATTTATACAAAGGTCTATCACTATTTAGATTGGATTGAATCTATTGTTTGGCC
AAATCAATAA
>g5458.t3 Gene=g5458 Length=174
MEDYQCGGSMISEQWILSAAHCVSTGGLTANFAKVGNVVRGRDTLNSWTYKIIQRIPHPN
YNSRFADDDIALFKLEKPAQLNVHVIPICLPDKELLTTKSAIASGYGRTGFADDVSEKLM
KVIIEYFKPADCNEAFADNTKLSNNQINWDKMVCAGSHNKTGDTCNVSILWFNS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g5458.t3 | CDD | cd00190 | Tryp_SPc | 4 | 166 | 1.48246E-42 |
| 6 | g5458.t3 | Gene3D | G3DSA:2.40.10.10 | - | 1 | 168 | 3.6E-37 |
| 2 | g5458.t3 | PANTHER | PTHR24276 | POLYSERASE-RELATED | 5 | 166 | 1.6E-29 |
| 3 | g5458.t3 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 7 | 22 | 2.4E-8 |
| 4 | g5458.t3 | PRINTS | PR00722 | Chymotrypsin serine protease family (S1) signature | 65 | 79 | 2.4E-8 |
| 1 | g5458.t3 | Pfam | PF00089 | Trypsin | 4 | 166 | 1.3E-29 |
| 8 | g5458.t3 | ProSitePatterns | PS00134 | Serine proteases, trypsin family, histidine active site. | 17 | 22 | - |
| 10 | g5458.t3 | ProSiteProfiles | PS50240 | Serine proteases, trypsin domain profile. | 1 | 166 | 16.474 |
| 9 | g5458.t3 | SMART | SM00020 | trypsin_2 | 2 | 169 | 4.6E-10 |
| 5 | g5458.t3 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 4 | 166 | 2.8E-39 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5458/g5458.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5458.t3.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