General information for g7983.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 40S ribosomal protein S26.
Parent gene
- The parent gene g7983 is located on chr_2: 27465094..27470132 (+ 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 | g7983 | g7983.t1 | TSS | g7983.t1 | 27465046 | 27465046 |
| chr_2 | g7983 | g7983.t1 | isoform | g7983.t1 | 27465094 | 27465864 |
| chr_2 | g7983 | g7983.t1 | exon | g7983.t1.exon1 | 27465094 | 27465096 |
| chr_2 | g7983 | g7983.t1 | cds | g7983.t1.CDS1 | 27465094 | 27465096 |
| chr_2 | g7983 | g7983.t1 | exon | g7983.t1.exon2 | 27465468 | 27465645 |
| chr_2 | g7983 | g7983.t1 | cds | g7983.t1.CDS2 | 27465468 | 27465645 |
| chr_2 | g7983 | g7983.t1 | exon | g7983.t1.exon3 | 27465707 | 27465864 |
| chr_2 | g7983 | g7983.t1 | cds | g7983.t1.CDS3 | 27465707 | 27465864 |
| chr_2 | g7983 | g7983.t1 | TTS | g7983.t1 | 27465962 | 27465962 |
Sequences
>g7983.t1 Gene=g7983 Length=339
ATGACCAAGAAACGTCGTAATGGAGGACGCTGCAAGCATAATCGTGGACATGTAAAGGCA
GTTCGTTGCACAAACTGTGCTCGTTGCGTTCCAAAGGATAAGGCAATCAAGAAGTTTGTC
ATTAGAAATATTGTTGAGGCAGCCGCTGTTCGTGATATCACTGTTGCCAGCGTTTACTCA
TCATATGTATTGCCGAAATTATATGCAAAGTTGCACTACTGCGTCTCATGCGCCATTCAC
AGTAAGGTCGTTCGTAACAGAAGCCGTGAGGCAAGAAGAATCAGAACTCCACCTGCTCGT
GCTTTCCCAGCTCGTCAACAAAACGCTCAGAGAAAGTAA
>g7983.t1 Gene=g7983 Length=112
MTKKRRNGGRCKHNRGHVKAVRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDITVASVYS
SYVLPKLYAKLHYCVSCAIHSKVVRNRSREARRIRTPPARAFPARQQNAQRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g7983.t1 | Gene3D | G3DSA:3.30.1740.20 | - | 1 | 107 | 2.3E-54 |
| 4 | g7983.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 86 | 112 | - |
| 2 | g7983.t1 | PANTHER | PTHR12538 | 40S RIBOSOMAL PROTEIN S26 | 1 | 107 | 1.8E-53 |
| 1 | g7983.t1 | Pfam | PF01283 | Ribosomal protein S26e | 1 | 107 | 6.9E-52 |
| 3 | g7983.t1 | ProSitePatterns | PS00733 | Ribosomal protein S26e signature. | 73 | 80 | - |
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 K02976 (small subunit ribosomal protein S26e)
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.
