General information for g4086.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t9 | isoform | g4086.t9 | 30509271 | 30510484 |
| chr_3 | g4086 | g4086.t9 | exon | g4086.t9.exon1 | 30509271 | 30509456 |
| chr_3 | g4086 | g4086.t9 | TTS | g4086.t9 | 30509274 | 30509274 |
| chr_3 | g4086 | g4086.t9 | cds | g4086.t9.CDS1 | 30509347 | 30509456 |
| chr_3 | g4086 | g4086.t9 | exon | g4086.t9.exon2 | 30509682 | 30510064 |
| chr_3 | g4086 | g4086.t9 | cds | g4086.t9.CDS2 | 30509682 | 30510064 |
| chr_3 | g4086 | g4086.t9 | exon | g4086.t9.exon3 | 30510213 | 30510319 |
| chr_3 | g4086 | g4086.t9 | cds | g4086.t9.CDS3 | 30510213 | 30510319 |
| chr_3 | g4086 | g4086.t9 | exon | g4086.t9.exon4 | 30510481 | 30510484 |
| chr_3 | g4086 | g4086.t9 | cds | g4086.t9.CDS4 | 30510481 | 30510483 |
| chr_3 | g4086 | g4086.t9 | TSS | g4086.t9 | 30510508 | 30510508 |
Sequences
>g4086.t9 Gene=g4086 Length=680
ATGGGTATTTCTCGCGATTCATTTCATAAACGCCGTGCGACTGGAGGCAAGAAGGCCCAG
ATTCGCAAGAAGCGAAAGTACGAATTGGGACGTCCACCAAGCAACACAAAGAACCCGTGG
TGGTAACAGAAAATTCCGTGCCCTTCGTTTAGACGGTGGTAATTTTGCATGGGCTTCACA
AGGAGCTGCACGCAAAACTAGAATTCTCGATGTCGTCTACAATGCATCAAACAACGAACT
CGTTCGTACAAAGACATTGGTAAAGAATTGCATTGTTTCCATTGATGCTACACCATTCAA
GCAGTTCTACGAAAGTCATTACTTGCTTCCACTTGGTCGCAAGAAGGATCACAAAGTGCA
ACTTGCAGAAGGTGAGGAAGATCCACTGACAAAGAAACGTAGCAAAGATGCATTGAAGAA
ATACGAAGAACGTCAAAAGTATGCTAAAGTTGAACCAGCTTTAGAAGAACAATTCTTGCA
AGGACGTTTATTAGCTGCTATCTCAAGCAGACCAGGACAATGTGGTCGTGCTGATGGATA
TATTTTGGAAGGCAAGGAACTCGAGTTCTACGTTAAGAAAATCAAATCTAAGAAATCAAA
GTAATTTTGATGAAAGTAAACAAATGTGAAATGTATGCATTCAAAAAAACATCAATAAAA
ATCCATATTGAATAATGAAA
>g4086.t9 Gene=g4086 Length=200
WVFLAIHFINAVRLEARRPRFARSESTNWDVHQATQRTRGGNRKFRALRLDGGNFAWASQ
GAARKTRILDVVYNASNNELVRTKTLVKNCIVSIDATPFKQFYESHYLLPLGRKKDHKVQ
LAEGEEDPLTKKRSKDALKKYEERQKYAKVEPALEEQFLQGRLLAAISSRPGQCGRADGY
ILEGKELEFYVKKIKSKKSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4086.t9 | CDD | cd11380 | Ribosomal_S8e_like | 37 | 182 | 0 |
| 3 | g4086.t9 | Gene3D | G3DSA:2.40.10.450 | - | 20 | 113 | 0 |
| 4 | g4086.t9 | Gene3D | G3DSA:2.40.10.450 | - | 114 | 199 | 0 |
| 2 | g4086.t9 | PANTHER | PTHR10394 | 40S RIBOSOMAL PROTEIN S8 | 35 | 200 | 0 |
| 1 | g4086.t9 | Pfam | PF01201 | Ribosomal protein S8e | 34 | 182 | 0 |
| 5 | g4086.t9 | TIGRFAM | TIGR00307 | eS8: ribosomal protein eS8 | 36 | 184 | 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 transcript has been annotated with K02995 (small subunit ribosomal protein S8e)
Pathway
- This transcript belongs to the following pathways
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.
