General information for g10224.t8
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L21.
Parent gene
- The parent gene g10224 is located on chr_1: 8346808..8347094 (+ 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 | g10224 | g10224.t8 | TSS | g10224.t8 | 8346468 | 8346468 |
| chr_1 | g10224 | g10224.t8 | isoform | g10224.t8 | 8346492 | 8347036 |
| chr_1 | g10224 | g10224.t8 | exon | g10224.t8.exon1 | 8346492 | 8346620 |
| chr_1 | g10224 | g10224.t8 | cds | g10224.t8.CDS1 | 8346492 | 8346620 |
| chr_1 | g10224 | g10224.t8 | exon | g10224.t8.exon2 | 8346686 | 8346800 |
| chr_1 | g10224 | g10224.t8 | cds | g10224.t8.CDS2 | 8346686 | 8346800 |
| chr_1 | g10224 | g10224.t8 | exon | g10224.t8.exon3 | 8346867 | 8347036 |
| chr_1 | g10224 | g10224.t8 | cds | g10224.t8.CDS3 | 8346867 | 8347036 |
| chr_1 | g10224 | g10224.t8 | TTS | g10224.t8 | 8347087 | 8347087 |
Sequences
>g10224.t8 Gene=g10224 Length=414
ATGACTCGCACTCACGGTTATCGTCGCGGTACACGCGACATGTTCTCGCGTCAATTCCGC
AGACATGGAGCTATCCCTCTTGCAACATACATGAAAGTATACAAAGCTGGCGATTATGTT
GATGTTAAGGGTAATGGTGCAGTTCACAAAGGTATGCCATTTAAAGCATATCACGGCAAA
ACTGGTCGTGTCTACAATGTAACACAACACGCACTCGGTGTTATTGTAAACAAAAGACAT
CGTGAATTTTTGGCACGAGTAAAGAGCAACGATGAGAAGCGTCGTGAAGCCAGAGCTCAA
GGAAAACGCGTTATGCTTAAGCGTAAACCAGTGGAACCATTGAAAGCTCGCGTTATCGAA
AATCCACCACAGCCTGTTTTTCTCGCTCCAATTCCATATGAGTTTGTCGCGTAA
>g10224.t8 Gene=g10224 Length=137
MTRTHGYRRGTRDMFSRQFRRHGAIPLATYMKVYKAGDYVDVKGNGAVHKGMPFKAYHGK
TGRVYNVTQHALGVIVNKRHREFLARVKSNDEKRREARAQGKRVMLKRKPVEPLKARVIE
NPPQPVFLAPIPYEFVA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g10224.t8 | Gene3D | G3DSA:2.30.30.70 | - | 1 | 95 | 2.2E-39 |
| 2 | g10224.t8 | PANTHER | PTHR20981 | 60S RIBOSOMAL PROTEIN L21 | 1 | 81 | 7.6E-48 |
| 3 | g10224.t8 | PANTHER | PTHR20981 | 60S RIBOSOMAL PROTEIN L21 | 81 | 136 | 7.6E-48 |
| 1 | g10224.t8 | Pfam | PF01157 | Ribosomal protein L21e | 1 | 82 | 1.8E-36 |
| 5 | g10224.t8 | ProSitePatterns | PS01171 | Ribosomal protein L21e signature. | 37 | 62 | - |
| 4 | g10224.t8 | SUPERFAMILY | SSF50104 | Translation proteins SH3-like domain | 3 | 81 | 1.19E-30 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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