General information for g11475.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L36.
Parent gene
- The parent gene g11475 is located on chr_1: 16439445..16440161 (+ 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 | g11475 | g11475.t4 | isoform | g11475.t4 | 16439238 | 16440068 |
| chr_1 | g11475 | g11475.t4 | exon | g11475.t4.exon1 | 16439238 | 16439279 |
| chr_1 | g11475 | g11475.t4 | exon | g11475.t4.exon2 | 16439438 | 16439567 |
| chr_1 | g11475 | g11475.t4 | cds | g11475.t4.CDS1 | 16439445 | 16439567 |
| chr_1 | g11475 | g11475.t4 | exon | g11475.t4.exon3 | 16439847 | 16440068 |
| chr_1 | g11475 | g11475.t4 | cds | g11475.t4.CDS2 | 16439847 | 16440068 |
| chr_1 | g11475 | g11475.t4 | TTS | g11475.t4 | 16440170 | 16440170 |
| chr_1 | g11475 | g11475.t4 | TSS | g11475.t4 | NA | NA |
Sequences
>g11475.t4 Gene=g11475 Length=394
TGCACTCCCTCTTTCTTTTTTGAAGTCGATTTGAAGCAAGAGATCTTCAATGGCACCAAA
ATACGAATTATGTGTTGGTCTAAACAAGGGCCATAAAACCACCAAAATAAAGCAAAAACA
ATATCGTGGCGAACGAAAAGAGAAAGGCATACGTCAGGCTCGCAAGAAGAACATTCAAAC
AAAACACACTAAATTCGTACGCGATCTCGTCCGCGAAGTAGTTGGTCACGCTCCCTATGA
ACGCCGAACAATGGAATTGTTAAAAGTATCAAAGGATAAGCGTGCACTCAAGTTCTTGAA
GAGACGATTGGGAACACACATCCGTGCAAAGAGAAAGCGTGAAGAGCTCGGAACAATCTT
GGCTCATATGAGAAAAGCAGCTGCACATAAATAG
>g11475.t4 Gene=g11475 Length=114
MAPKYELCVGLNKGHKTTKIKQKQYRGERKEKGIRQARKKNIQTKHTKFVRDLVREVVGH
APYERRTMELLKVSKDKRALKFLKRRLGTHIRAKRKREELGTILAHMRKAAAHK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11475.t4 | Gene3D | G3DSA:1.10.10.1760 | - | 1 | 114 | 4.1E-40 |
| 2 | g11475.t4 | PANTHER | PTHR10114 | 60S RIBOSOMAL PROTEIN L36 | 2 | 114 | 3.5E-39 |
| 3 | g11475.t4 | PANTHER | PTHR10114:SF0 | 60S RIBOSOMAL PROTEIN L36-RELATED | 2 | 114 | 3.5E-39 |
| 1 | g11475.t4 | Pfam | PF01158 | Ribosomal protein L36e | 4 | 109 | 1.4E-42 |
| 4 | g11475.t4 | ProSitePatterns | PS01190 | Ribosomal protein L36e signature. | 62 | 72 | - |
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 K02920 (large subunit ribosomal protein L36e)
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.
