General information for g3358.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3358 is located on chr_3: 24831482..24832860 (- 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_3 | g3358 | g3358.t7 | TTS | g3358.t7 | 24830821 | 24830821 |
| chr_3 | g3358 | g3358.t7 | isoform | g3358.t7 | 24831214 | 24831721 |
| chr_3 | g3358 | g3358.t7 | exon | g3358.t7.exon1 | 24831214 | 24831513 |
| chr_3 | g3358 | g3358.t7 | cds | g3358.t7.CDS1 | 24831215 | 24831513 |
| chr_3 | g3358 | g3358.t7 | exon | g3358.t7.exon2 | 24831577 | 24831721 |
| chr_3 | g3358 | g3358.t7 | cds | g3358.t7.CDS2 | 24831577 | 24831721 |
| chr_3 | g3358 | g3358.t7 | TSS | g3358.t7 | 24831795 | 24831795 |
Sequences
>g3358.t7 Gene=g3358 Length=445
ATGGCACTTAAACTATTACAAAATGGAAGGCTTTTAACTCGAGCTTTTCAAAATTTACAT
ATAACACCAACAACATCAACTATTTTTGCTAAAAATAATGATTTGAATTTAAATTTTTCA
CGCAACACAAGTTTCTTCGTAAAATTGCCTGCAGAAGATTTATGGAAAGGAGTTACATCA
GTTTCAAATGCAGGAAGAAAAAGAGGTCGTGCGAAAGGTTTAGTAAGAAGAAAAGATTTG
AATCGTGGGCAAGTGATTGGTGTCGGTAAAGCAAATATTCAATGGCCTGGACTTTCGGCT
CCTATTATTCGTGGTAGAGAACTCATTCAAAGACAACAATTGCCACCAGATCCAGAACGA
GAAGCAAAATTGATTAAAATGCGTGATGCGATGAGTAGCAAAGGATATCAAAAATTGTCA
CCTCTTGATCGTGGTTGGACAGGTG
>g3358.t7 Gene=g3358 Length=148
MALKLLQNGRLLTRAFQNLHITPTTSTIFAKNNDLNLNFSRNTSFFVKLPAEDLWKGVTS
VSNAGRKRGRAKGLVRRKDLNRGQVIGVGKANIQWPGLSAPIIRGRELIQRQQLPPDPER
EAKLIKMRDAMSSKGYQKLSPLDRGWTG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g3358.t7 | PANTHER | PTHR13718:SF90 | 28S RIBOSOMAL PROTEIN S5, MITOCHONDRIAL | 32 | 148 | 0 |
| g3358.t7 | PANTHER | PTHR13718 | RIBOSOMAL S SUBUNIT | 32 | 148 | 0 |
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:0005840 | ribosome | CC |
| GO:0006412 | translation | BP |
| GO:0003735 | structural constituent of ribosome | MF |
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.
