General information for g4086.t1
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.t1 | TTS | g4086.t1 | 30509274 | 30509274 |
| chr_3 | g4086 | g4086.t1 | isoform | g4086.t1 | 30509347 | 30510484 |
| chr_3 | g4086 | g4086.t1 | exon | g4086.t1.exon1 | 30509347 | 30509456 |
| chr_3 | g4086 | g4086.t1 | cds | g4086.t1.CDS1 | 30509347 | 30509456 |
| chr_3 | g4086 | g4086.t1 | exon | g4086.t1.exon2 | 30509682 | 30510093 |
| chr_3 | g4086 | g4086.t1 | cds | g4086.t1.CDS2 | 30509682 | 30510093 |
| chr_3 | g4086 | g4086.t1 | exon | g4086.t1.exon3 | 30510213 | 30510319 |
| chr_3 | g4086 | g4086.t1 | cds | g4086.t1.CDS3 | 30510213 | 30510319 |
| chr_3 | g4086 | g4086.t1 | exon | g4086.t1.exon4 | 30510481 | 30510484 |
| chr_3 | g4086 | g4086.t1 | cds | g4086.t1.CDS4 | 30510481 | 30510484 |
| chr_3 | g4086 | g4086.t1 | TSS | g4086.t1 | 30510508 | 30510508 |
Sequences
>g4086.t1 Gene=g4086 Length=633
ATGGGTATTTCTCGCGATTCATTTCATAAACGCCGTGCGACTGGAGGCAAGAAGGCCCAG
ATTCGCAAGAAGCGAAAGTACGAATTGGGACGTCCACCAAGCAACACAAAGATCGGCGCT
CATCGCGTACATTTTGTAAGAACCCGTGGTGGTAACAGAAAATTCCGTGCCCTTCGTTTA
GACGGTGGTAATTTTGCATGGGCTTCACAAGGAGCTGCACGCAAAACTAGAATTCTCGAT
GTCGTCTACAATGCATCAAACAACGAACTCGTTCGTACAAAGACATTGGTAAAGAATTGC
ATTGTTTCCATTGATGCTACACCATTCAAGCAGTTCTACGAAAGTCATTACTTGCTTCCA
CTTGGTCGCAAGAAGGATCACAAAGTGCAACTTGCAGAAGGTGAGGAAGATCCACTGACA
AAGAAACGTAGCAAAGATGCATTGAAGAAATACGAAGAACGTCAAAAGTATGCTAAAGTT
GAACCAGCTTTAGAAGAACAATTCTTGCAAGGACGTTTATTAGCTGCTATCTCAAGCAGA
CCAGGACAATGTGGTCGTGCTGATGGATATATTTTGGAAGGCAAGGAACTCGAGTTCTAC
GTTAAGAAAATCAAATCTAAGAAATCAAAGTAA
>g4086.t1 Gene=g4086 Length=210
MGISRDSFHKRRATGGKKAQIRKKRKYELGRPPSNTKIGAHRVHFVRTRGGNRKFRALRL
DGGNFAWASQGAARKTRILDVVYNASNNELVRTKTLVKNCIVSIDATPFKQFYESHYLLP
LGRKKDHKVQLAEGEEDPLTKKRSKDALKKYEERQKYAKVEPALEEQFLQGRLLAAISSR
PGQCGRADGYILEGKELEFYVKKIKSKKSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4086.t1 | CDD | cd11380 | Ribosomal_S8e_like | 5 | 192 | 3.11756E-61 |
| 8 | g4086.t1 | Gene3D | G3DSA:2.40.10.450 | - | 32 | 111 | 3.5E-28 |
| 7 | g4086.t1 | Gene3D | G3DSA:1.10.168.20 | - | 112 | 171 | 1.5E-23 |
| 6 | g4086.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 34 | - |
| 5 | g4086.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 11 | 25 | - |
| 2 | g4086.t1 | PANTHER | PTHR10394 | 40S RIBOSOMAL PROTEIN S8 | 1 | 210 | 2.4E-98 |
| 3 | g4086.t1 | PANTHER | PTHR10394:SF3 | 40S RIBOSOMAL PROTEIN S8 | 1 | 210 | 2.4E-98 |
| 1 | g4086.t1 | Pfam | PF01201 | Ribosomal protein S8e | 1 | 192 | 2.2E-55 |
| 4 | g4086.t1 | ProSitePatterns | PS01193 | Ribosomal protein S8e signature. | 11 | 30 | - |
| 9 | g4086.t1 | TIGRFAM | TIGR00307 | eS8: ribosomal protein eS8 | 1 | 194 | 8.7E-49 |
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.
