General information for g9278.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 40S ribosomal protein S10b.
Parent gene
- The parent gene g9278 is located on chr_1: 1399153..1400944 (+ 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_1 | g9278 | g9278.t17 | TSS | g9278.t17 | 1398732 | 1398732 |
| chr_1 | g9278 | g9278.t17 | isoform | g9278.t17 | 1398805 | 1399725 |
| chr_1 | g9278 | g9278.t17 | exon | g9278.t17.exon1 | 1398805 | 1399050 |
| chr_1 | g9278 | g9278.t17 | exon | g9278.t17.exon2 | 1399201 | 1399345 |
| chr_1 | g9278 | g9278.t17 | cds | g9278.t17.CDS1 | 1399284 | 1399345 |
| chr_1 | g9278 | g9278.t17 | exon | g9278.t17.exon3 | 1399400 | 1399631 |
| chr_1 | g9278 | g9278.t17 | cds | g9278.t17.CDS2 | 1399400 | 1399631 |
| chr_1 | g9278 | g9278.t17 | exon | g9278.t17.exon4 | 1399687 | 1399725 |
| chr_1 | g9278 | g9278.t17 | cds | g9278.t17.CDS3 | 1399687 | 1399725 |
| chr_1 | g9278 | g9278.t17 | TTS | g9278.t17 | 1399800 | 1399800 |
Sequences
>g9278.t17 Gene=g9278 Length=662
AATGAAATTGAATTATTCTTTATGAAATCATTTACATAAGATAGTGATACACAAGTTTTA
TTTCGATTTTATTTAAAATTTAATCATGAAAGTGAAAGAAAAACAAAAATTTAGTGCCAA
TATTTTTTGAAAATTTTTTTTTGCAATTTTTCTGTGTTACTATAAAAAAATATCTATTTA
AATACTTTAAAGTAAATTTTCATTTTAATTATCATTAAAACAAATGTTTTTCATAAAGAA
TAATTAGAGTTCTTGTTGCACAAAAGGATTTTCATGCACCAAAACATCCCGAACTCGAGA
GCGTTCCAAATCTTCATGTAATTAAGACTATGCAGTCATTGAAATCAAGAAATCTTGTTA
AGGAACAATTTGCATGGAGACATTATTACTGGTATCTCACAAATGAAGGCATTGAATATT
TGCGTCAATATCTTCATTTGCCACCAGAAATCGTTCCATCAACATTGAAGCGAACAACTC
GCTCAGATGCTGCTCGTCCTCGCGCTGCTCCACGTTCAGATGGACCAAAATCAGGAGAAG
ATCGTCAAGCATACAGACGTGCACCAGGGCAATCGTCAGACAAAAAAGCCGATGTTGGTG
CTGGTGCAGCTGATATTGAATTGCGTGGTGGATTCGGTCGTGGCTCAAGAGGCCCACAGT
AA
>g9278.t17 Gene=g9278 Length=110
MQSLKSRNLVKEQFAWRHYYWYLTNEGIEYLRQYLHLPPEIVPSTLKRTTRSDAARPRAA
PRSDGPKSGEDRQAYRRAPGQSSDKKADVGAGAADIELRGGFGRGSRGPQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9278.t17 | Gene3D | G3DSA:1.10.10.10 | winged helix repressor DNA binding domain | 1 | 61 | 2.8E-27 |
| 4 | g9278.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 41 | 110 | - |
| 3 | g9278.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 83 | - |
| 2 | g9278.t17 | PANTHER | PTHR12146 | 40S RIBOSOMAL PROTEIN S10 | 1 | 106 | 5.8E-34 |
| 1 | g9278.t17 | Pfam | PF03501 | Plectin/S10 domain | 1 | 49 | 2.5E-25 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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