General information for g11302.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 40S ribosomal protein S25.
Parent gene
- The parent gene g11302 is located on chr_1: 15497275..15505521 (- 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 | g11302 | g11302.t9 | TTS | g11302.t9 | 15497036 | 15497036 |
| chr_1 | g11302 | g11302.t9 | isoform | g11302.t9 | 15497135 | 15497973 |
| chr_1 | g11302 | g11302.t9 | exon | g11302.t9.exon1 | 15497135 | 15497214 |
| chr_1 | g11302 | g11302.t9 | cds | g11302.t9.CDS1 | 15497135 | 15497214 |
| chr_1 | g11302 | g11302.t9 | exon | g11302.t9.exon2 | 15497276 | 15497516 |
| chr_1 | g11302 | g11302.t9 | cds | g11302.t9.CDS2 | 15497276 | 15497516 |
| chr_1 | g11302 | g11302.t9 | exon | g11302.t9.exon3 | 15497949 | 15497973 |
| chr_1 | g11302 | g11302.t9 | cds | g11302.t9.CDS3 | 15497949 | 15497951 |
| chr_1 | g11302 | g11302.t9 | TSS | g11302.t9 | 15497973 | 15497973 |
Sequences
>g11302.t9 Gene=g11302 Length=346
CTTTTCTGAACGTTCAGTGAAAATGCCACAAAAGACACAAAAGAAGAAGGAAGGAGGAGG
AGGTGGCAAAGCAAAAAAGAAGAAGTGGTCGAAAGGAAAAGTTCGTGATAAGTTAAACAA
TCAGGTTCTTTTCGACAAAGCCACTTACGAGAAATTGTATAAGGAAGTCCCTCAATACAA
GCTCATTACTCCATCGGTAGTGTCTGAAAGATTGAAGGTTCGTGGTTCATTAGCTAAGAG
AGCCCTCATTGAATTGCGCGACAAAGGATTAATTAAGCAAGTTGTACACCATAATGCACA
ATTAATCTTCACGAGAACAACCAAGGGCGATGATCCAGTTGCATAA
>g11302.t9 Gene=g11302 Length=107
MPQKTQKKKEGGGGGKAKKKKWSKGKVRDKLNNQVLFDKATYEKLYKEVPQYKLITPSVV
SERLKVRGSLAKRALIELRDKGLIKQVVHHNAQLIFTRTTKGDDPVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11302.t9 | Gene3D | G3DSA:1.10.10.2780 | - | 15 | 105 | 1.4E-39 |
| 4 | g11302.t9 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - |
| 2 | g11302.t9 | PANTHER | PTHR12850 | 40S RIBOSOMAL PROTEIN S25 | 12 | 105 | 1.2E-43 |
| 3 | g11302.t9 | PANTHER | PTHR12850:SF19 | - | 12 | 105 | 1.2E-43 |
| 1 | g11302.t9 | Pfam | PF03297 | S25 ribosomal protein | 4 | 98 | 1.7E-43 |
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 transcript has been annotated with K02975 (small subunit ribosomal protein S25e)
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.
