General information for g11591.t16
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.t16 | isoform | g11591.t16 | 17380111 | 17381704 |
| chr_1 | g11591 | g11591.t16 | exon | g11591.t16.exon1 | 17380111 | 17380719 |
| chr_1 | g11591 | g11591.t16 | exon | g11591.t16.exon2 | 17381189 | 17381382 |
| chr_1 | g11591 | g11591.t16 | cds | g11591.t16.CDS1 | 17381206 | 17381382 |
| chr_1 | g11591 | g11591.t16 | exon | g11591.t16.exon3 | 17381438 | 17381704 |
| chr_1 | g11591 | g11591.t16 | cds | g11591.t16.CDS2 | 17381438 | 17381704 |
| chr_1 | g11591 | g11591.t16 | TTS | g11591.t16 | 17381807 | 17381807 |
| chr_1 | g11591 | g11591.t16 | TSS | g11591.t16 | NA | NA |
Sequences
>g11591.t16 Gene=g11591 Length=1070
ATGATTTATAAAGATATAGATAATGAAATTTGTATAATATATGTTAATTATGAGTAGCAT
TTACAGAAATGAGGAAGAGCAAAGAAAGGAAGTCACCTGATAATAAAGAGCACTAGAATT
TGATTATACAGATAAGTATGATATTTCACTTCAATACTTTCAAGAGTGAATTTTAGTTCT
TTCTTTTATATACACGTGTGTTTTAGCTTTATCACTTTACGTCACATTACTAACCTGATT
TATTATTTATCAAGCACTTGGTTTTTTCACTTTGTTATAGTACCTATATAAAATTGAGGA
TGATAAAAAAAATCAATTTTTCTCCTTTGTAATTTGTGAGTTTGTGTTTTGTGTTTATTC
CACTATTCTTTTTAATAAATATTTTTGTAATAAAAAACGGTAATTTTCACGAAATAATTT
TTAAAGTAATAAAAAGTTTTAATTCGCCATAAGTGTATGATTTTCTAAATTTTTATTAAC
TTCTAATTTTTTTATTTTTTTTAAATGCTAATACACCTTCAAATTAATAAAGTCGTCTTC
ACATTTTTTTTTTCATTTTTTTCGTCAAATCTCAAATCTTTCTTTTTTGCCCGCATTTCA
AAGCAAAAGATATAGCTTATAGCAACATGGCAATTGCTAAGAAAATTGATCCAGCCTCAG
CCAAGTCAAAGACCACTGGCAAAGCTATTCAGAAGAAACAAACTCTACGAGGAAAGAGTT
TGAAAAAGAAGAAAGAACATCTTCGTTATGGAATTGACTGCACAAACATTGCAGAAGACA
ACATTTTGGATGTGGCTGATTTTGAGAAATTCTTGAAAGAACGCTTTAAGGTCAATGGAA
AAACTGGAAATTTGGGCAATAATGTCTCGATGGAGAGACAAAAATTCAAAATTTACGTCA
GCTCAGATATTCACTTTTCAAAACGTTATTTGAAGTATTTGACAAAGAAGTACTTGAAGA
AACACAGTCTTCGTGATTGGATTCGTGTTGTCTCAAATGACAAGGATTTATATGAATTGC
GCTACTTCAGAATCGGATCTAATGATGATGATGAGGAAGAAAACGAATAA
>g11591.t16 Gene=g11591 Length=147
MAIAKKIDPASAKSKTTGKAIQKKQTLRGKSLKKKKEHLRYGIDCTNIAEDNILDVADFE
KFLKERFKVNGKTGNLGNNVSMERQKFKIYVSSDIHFSKRYLKYLTKKYLKKHSLRDWIR
VVSNDKDLYELRYFRIGSNDDDEEENE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11591.t16 | Coils | Coil | Coil | 139 | 147 | - |
| 5 | g11591.t16 | Gene3D | G3DSA:3.30.1360.210 | - | 27 | 147 | 6.4E-51 |
| 4 | g11591.t16 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 27 | - |
| 2 | g11591.t16 | PANTHER | PTHR10064 | 60S RIBOSOMAL PROTEIN L22 | 9 | 145 | 9.9E-60 |
| 3 | g11591.t16 | PANTHER | PTHR10064:SF0 | 60S RIBOSOMAL PROTEIN L22-RELATED | 9 | 145 | 9.9E-60 |
| 1 | g11591.t16 | Pfam | PF01776 | Ribosomal L22e protein family | 36 | 143 | 6.1E-45 |
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.
