General information for g11591.t39
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L22.
Parent gene
- The parent gene g11591 is located on chr_1: 17381479..17381802 (+ 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 | g11591 | g11591.t39 | isoform | g11591.t39 | 17381093 | 17381704 |
| chr_1 | g11591 | g11591.t39 | exon | g11591.t39.exon1 | 17381093 | 17381131 |
| chr_1 | g11591 | g11591.t39 | cds | g11591.t39.CDS1 | 17381094 | 17381131 |
| chr_1 | g11591 | g11591.t39 | exon | g11591.t39.exon2 | 17381202 | 17381382 |
| chr_1 | g11591 | g11591.t39 | cds | g11591.t39.CDS2 | 17381202 | 17381382 |
| chr_1 | g11591 | g11591.t39 | exon | g11591.t39.exon3 | 17381438 | 17381704 |
| chr_1 | g11591 | g11591.t39 | cds | g11591.t39.CDS3 | 17381438 | 17381704 |
| chr_1 | g11591 | g11591.t39 | TTS | g11591.t39 | 17381807 | 17381807 |
| chr_1 | g11591 | g11591.t39 | TSS | g11591.t39 | NA | NA |
Sequences
>g11591.t39 Gene=g11591 Length=487
AATGTGTACCTTGGCTCCTGTTGCACCTTACAAAGTAATCAACATGGCAATTGCTAAGAA
AATTGATCCAGCCTCAGCCAAGTCAAAGACCACTGGCAAAGCTATTCAGAAGAAACAAAC
TCTACGAGGAAAGAGTTTGAAAAAGAAGAAAGAACATCTTCGTTATGGAATTGACTGCAC
AAACATTGCAGAAGACAACATTTTGGATGTGGCTGATTTTGAGAAATTCTTGAAAGAACG
CTTTAAGGTCAATGGAAAAACTGGAAATTTGGGCAATAATGTCTCGATGGAGAGACAAAA
ATTCAAAATTTACGTCAGCTCAGATATTCACTTTTCAAAACGTTATTTGAAGTATTTGAC
AAAGAAGTACTTGAAGAAACACAGTCTTCGTGATTGGATTCGTGTTGTCTCAAATGACAA
GGATTTATATGAATTGCGCTACTTCAGAATCGGATCTAATGATGATGATGAGGAAGAAAA
CGAATAA
>g11591.t39 Gene=g11591 Length=161
MCTLAPVAPYKVINMAIAKKIDPASAKSKTTGKAIQKKQTLRGKSLKKKKEHLRYGIDCT
NIAEDNILDVADFEKFLKERFKVNGKTGNLGNNVSMERQKFKIYVSSDIHFSKRYLKYLT
KKYLKKHSLRDWIRVVSNDKDLYELRYFRIGSNDDDEEENE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g11591.t39 | Gene3D | G3DSA:3.30.1360.210 | - | 41 | 161 | 0 |
| 2 | g11591.t39 | PANTHER | PTHR10064 | 60S RIBOSOMAL PROTEIN L22 | 21 | 159 | 0 |
| 3 | g11591.t39 | PANTHER | PTHR10064:SF0 | 60S RIBOSOMAL PROTEIN L22-RELATED | 21 | 159 | 0 |
| 1 | g11591.t39 | Pfam | PF01776 | Ribosomal L22e protein family | 50 | 157 | 0 |
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 K02891 (large subunit ribosomal protein L22e)
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. There were no conditions that were differentially expressed