General information for g7115.t19
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 40S ribosomal protein S9.
Parent gene
- The parent gene g7115 is located on chr_2: 21264902..21266725 (- 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 | g7115 | g7115.t19 | isoform | g7115.t19 | 21263043 | 21264384 |
| chr_2 | g7115 | g7115.t19 | exon | g7115.t19.exon1 | 21263043 | 21263270 |
| chr_2 | g7115 | g7115.t19 | TTS | g7115.t19 | 21263047 | 21263047 |
| chr_2 | g7115 | g7115.t19 | exon | g7115.t19.exon2 | 21264004 | 21264384 |
| chr_2 | g7115 | g7115.t19 | cds | g7115.t19.CDS1 | 21264024 | 21264161 |
| chr_2 | g7115 | g7115.t19 | TSS | g7115.t19 | 21264887 | 21264887 |
Sequences
>g7115.t19 Gene=g7115 Length=609
ACGTCCATATGAAAAACCTCGCTTGGATGCTGAATTAAGAGTTATCGGACAATTTGGTCT
CCGTAACAAGCGTGAGGTATGGCGAGTCAAGTATACATTAGCAAAGATCCGTAAAGCTGC
TCGTGAATTGCTTACACTTGAAGAGAAAGATGAGAAACGTTTGTTTCAAGGAAATGCTCT
TCTTCGTCGTCTTGTTCGTATTGGTGTGTTAGACGAATCACGCATGAAGCTCGATTACGT
TCTTGGTTTAAAAATTGAAGATTTCTTAGAACGTCGCTTGCAGACTCAAGTTTTCAAACT
CGGTTTGGCTAAATCTTATCATCATGCTCGCGTTCTTATCCGACAAAGACATATTCGGTA
AGTTAAATTACAAACCAAACATGATTTCTCATTGAAGTCACCATTCGGTGGTGGACGACC
AGGTCGCGTCAAGCGAAAGAATATGAAGAAGGGTCAAGGTGGTAGCGGTGGCGCTGATGA
AGAAGAAGAGGATTAAACTGGAATTCACAGCAACATCTTTTCGCAACAAAAAATCTTATT
AAAATCTTTTCCAGTTGGTGTGTGCGATAAAAAAGAACATTCAAACATAATAAATGAAAA
TTGATAAAA
>g7115.t19 Gene=g7115 Length=45
MKLDYVLGLKIEDFLERRLQTQVFKLGLAKSYHHARVLIRQRHIR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g7115.t19 | Gene3D | G3DSA:3.10.290.10 | - | 16 | 45 | 1.0E-5 |
| 2 | g7115.t19 | PANTHER | PTHR11831:SF5 | 40S RIBOSOMAL PROTEIN S9 | 1 | 45 | 1.8E-23 |
| 3 | g7115.t19 | PANTHER | PTHR11831 | 30S 40S RIBOSOMAL PROTEIN | 1 | 45 | 1.8E-23 |
| 1 | g7115.t19 | Pfam | PF01479 | S4 domain | 17 | 45 | 1.3E-5 |
| 5 | g7115.t19 | ProSitePatterns | PS00632 | Ribosomal protein S4 signature. | 15 | 39 | - |
| 4 | g7115.t19 | SUPERFAMILY | SSF55174 | Alpha-L RNA-binding motif | 2 | 45 | 4.56E-12 |
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:0003723 | RNA binding | MF |
| GO:0019843 | rRNA binding | 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.
