General information for g4086.t24
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 40S ribosomal protein S8.
Parent gene
- The parent gene g4086 is located on chr_3: 30509687..30510484 (- 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 | g4086 | g4086.t24 | TTS | g4086.t24 | 30509274 | 30509274 |
| chr_3 | g4086 | g4086.t24 | isoform | g4086.t24 | 30509683 | 30510484 |
| chr_3 | g4086 | g4086.t24 | exon | g4086.t24.exon1 | 30509683 | 30510070 |
| chr_3 | g4086 | g4086.t24 | cds | g4086.t24.CDS1 | 30509683 | 30510070 |
| chr_3 | g4086 | g4086.t24 | exon | g4086.t24.exon2 | 30510213 | 30510319 |
| chr_3 | g4086 | g4086.t24 | cds | g4086.t24.CDS2 | 30510213 | 30510319 |
| chr_3 | g4086 | g4086.t24 | exon | g4086.t24.exon3 | 30510481 | 30510484 |
| chr_3 | g4086 | g4086.t24 | cds | g4086.t24.CDS3 | 30510481 | 30510483 |
| chr_3 | g4086 | g4086.t24 | TSS | g4086.t24 | 30510508 | 30510508 |
Sequences
>g4086.t24 Gene=g4086 Length=499
ATGGGTATTTCTCGCGATTCATTTCATAAACGCCGTGCGACTGGAGGCAAGAAGGCCCAG
ATTCGCAAGAAGCGAAAGTACGAATTGGGACGTCCACCAAGCAACACAAAGTGTAAGAAC
CCGTGGTGGTAACAGAAAATTCCGTGCCCTTCGTTTAGACGGTGGTAATTTTGCATGGGC
TTCACAAGGAGCTGCACGCAAAACTAGAATTCTCGATGTCGTCTACAATGCATCAAACAA
CGAACTCGTTCGTACAAAGACATTGGTAAAGAATTGCATTGTTTCCATTGATGCTACACC
ATTCAAGCAGTTCTACGAAAGTCATTACTTGCTTCCACTTGGTCGCAAGAAGGATCACAA
AGTGCAACTTGCAGAAGGTGAGGAAGATCCACTGACAAAGAAACGTAGCAAAGATGCATT
GAAGAAATACGAAGAACGTCAAAAGTATGCTAAAGTTGAACCAGCTTTAGAAGAACAATT
CTTGCAAGGACGTTTATTA
>g4086.t24 Gene=g4086 Length=166
WVFLAIHFINAVRLEARRPRFARSESTNWDVHQATQSVRTRGGNRKFRALRLDGGNFAWA
SQGAARKTRILDVVYNASNNELVRTKTLVKNCIVSIDATPFKQFYESHYLLPLGRKKDHK
VQLAEGEEDPLTKKRSKDALKKYEERQKYAKVEPALEEQFLQGRLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4086.t24 | CDD | cd11380 | Ribosomal_S8e_like | 35 | 107 | 0 |
| 4 | g4086.t24 | Gene3D | G3DSA:2.40.10.450 | - | 25 | 102 | 0 |
| 3 | g4086.t24 | Gene3D | G3DSA:1.10.168.20 | - | 103 | 163 | 0 |
| 2 | g4086.t24 | PANTHER | PTHR10394 | 40S RIBOSOMAL PROTEIN S8 | 32 | 166 | 0 |
| 1 | g4086.t24 | Pfam | PF01201 | Ribosomal protein S8e | 25 | 165 | 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. There were no conditions that were differentially expressed