General information for g5458.t8
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.t8 | TTS | g5458.t8 | 9677650 | 9677650 |
| chr_2 | g5458 | g5458.t8 | isoform | g5458.t8 | 9677666 | 9679335 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon1 | 9677666 | 9677851 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon2 | 9677978 | 9678390 |
| chr_2 | g5458 | g5458.t8 | cds | g5458.t8.CDS1 | 9678377 | 9678390 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon3 | 9678464 | 9678514 |
| chr_2 | g5458 | g5458.t8 | cds | g5458.t8.CDS2 | 9678464 | 9678514 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon4 | 9678608 | 9678661 |
| chr_2 | g5458 | g5458.t8 | cds | g5458.t8.CDS3 | 9678608 | 9678661 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon5 | 9678733 | 9678753 |
| chr_2 | g5458 | g5458.t8 | cds | g5458.t8.CDS4 | 9678733 | 9678753 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon6 | 9678820 | 9678942 |
| chr_2 | g5458 | g5458.t8 | cds | g5458.t8.CDS5 | 9678820 | 9678942 |
| chr_2 | g5458 | g5458.t8 | exon | g5458.t8.exon7 | 9679004 | 9679335 |
| chr_2 | g5458 | g5458.t8 | cds | g5458.t8.CDS6 | 9679004 | 9679172 |
| chr_2 | g5458 | g5458.t8 | TSS | g5458.t8 | 9679356 | 9679356 |
Sequences
>g5458.t8 Gene=g5458 Length=1180
ATGAAAAGAATAATAATCATTGAGTTTGTGATTTTTACGGTGGTTTGGGGTCAAACACGT
TAGTTCACATTCTTATCGCTTATTACTCAATTATTGTAATAATATGTGAATTTTTAAATT
CACAGCATGCACCGTTTCAAAGACAAAACAAGTAGGTGAGTGCATGTTCATTAGTAACTG
CCCTGAGGTTCTTAAAACTTTCAAAGAATCTGGTGAAATGCCGACAATATGTGACCGTGT
TCTGCGTACTATTTGTTGTCCTTTAAAAACCACTACAACGTCTACAACTACAACAACAAC
TACTCATTCACCTATTCGTATAAGTGTCAAAAAATGTAAAGAATATGGTCAACTGGTGTA
TGAAAAAAAAATTGTAAACAGTTCAATTATTGGCGAACCAAGTGTCGTTAAAATGATATC
AAAGTGTAATCACGAATCAGTGCCACTTATTGTTGGTGGTGAAGATGCAAAGGATGGGGA
ATTCCCTCACATGGCGTTAATAGGGTTTGGGGATGGCAATAGAATGGAAGATTATCAATG
TGGAGGTTCGATGATTTCTGAACAGTGGATTCTCTCAGTATTACTGGTGGTTTAACAGCA
AATTTTGCAAAAGTTGGTAATGTGGTTCGAGGACGAGACACATTGAATTCATGGACTTAT
AAAATAATTCAAAGAATTCCTCATCCAAATTATAATTCAAGATTTGCAGATGATGATATT
GCATTATTTAAACTTGAAAAACCTGCACAATTAAATGTTCATGTTATACCAATTTGTTTA
CCAGATAAAGAATTACTTACTACAAAATCAGCTATAGCAAGTGGCTATGGACGTACTGGA
TTTGCTGATGATGTTAGTGAAAAATTGATGAAAGTTATAATTGAATATTTTAAGCCAGCA
GATTGTAATGAAGCATTTGCGGATAACACAAAACTTTCAAATAATCAAATAAATTGGGAT
AAAATGGTTTGTGCGGGGTCTCATAATAAAACTGAATTAATGTTTTATTTTGATAGGTCC
ATTGCAAATTTATCATTCTGATGTCTATTGCATGTATAAAATAATTGGTATCACATCCTT
TGGTCATGCTTACTGCGGTTTTCCTGGTGTCCCTGCTATTTATACAAAGGTCTATCACTA
TTTAGATTGGATTGAATCTATTGTTTGGCCAAATCAATAA
>g5458.t8 Gene=g5458 Length=143
MFISNCPEVLKTFKESGEMPTICDRVLRTICCPLKTTTTSTTTTTTTHSPIRISVKKCKE
YGQLVYEKKIVNSSIIGEPSVVKMISKCNHESVPLIVGGEDAKDGEFPHMALIGFGDGNR
MEDYQCGGSMISEQWILSVLLVV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5458.t8 | Gene3D | G3DSA:2.40.10.10 | - | 96 | 139 | 0.0e+00 |
| 2 | g5458.t8 | PANTHER | PTHR24260 | - | 32 | 138 | 0.0e+00 |
| 3 | g5458.t8 | PANTHER | PTHR24260:SF91 | FI18411P1-RELATED | 32 | 138 | 0.0e+00 |
| 1 | g5458.t8 | Pfam | PF00089 | Trypsin | 96 | 138 | 1.1e-06 |
| 4 | g5458.t8 | SUPERFAMILY | SSF50494 | Trypsin-like serine proteases | 85 | 138 | 0.0e+00 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5458/g5458.t8; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5458.t8.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