General information for g9932.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 40S ribosomal protein S14.
Parent gene
- The parent gene g9932 is located on chr_1: 6069414..6073992 (+ 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 | g9932 | g9932.t3 | isoform | g9932.t3 | 6069138 | 6069944 |
| chr_1 | g9932 | g9932.t3 | exon | g9932.t3.exon1 | 6069138 | 6069155 |
| chr_1 | g9932 | g9932.t3 | exon | g9932.t3.exon2 | 6069380 | 6069629 |
| chr_1 | g9932 | g9932.t3 | cds | g9932.t3.CDS1 | 6069414 | 6069629 |
| chr_1 | g9932 | g9932.t3 | exon | g9932.t3.exon3 | 6069726 | 6069944 |
| chr_1 | g9932 | g9932.t3 | cds | g9932.t3.CDS2 | 6069726 | 6069944 |
| chr_1 | g9932 | g9932.t3 | TTS | g9932.t3 | 6070062 | 6070062 |
| chr_1 | g9932 | g9932.t3 | TSS | g9932.t3 | NA | NA |
Sequences
>g9932.t3 Gene=g9932 Length=487
TCTCAGATTTCAAGAGAAATTTCAATTCGAGTTATTCAGATAGTGAATAAACATGGCTCC
AAGAAAGAATAAAGTTGCGAAAGAAGAAGTTCAAGTATCACTCGGACCTCAAGTTCGTGA
AGGAGAAATTGTTTTCGGTGTTGCACACATCTATGCTAGTTTCAATGATACTTTTGTTCA
TGTCACCGATTTATCAGGCAAAGAAACAATTTCACGCGTTACTGGCGGTATGAAAGTAAA
AGCCGATCGTGATGAGGCATCTCCCTATGATGTTGCTGAAAAATGCAAAACTCTTGGAAT
CACAGCCCTTCACATTAAATTACGTGCAACTGGTGGAAACAGAACAAAAACACCTGGACC
AGGAGCTCAATCAGCTTTACGTGCTTTGGCTCGTTCAAACATGAAAATCGGTCGCATTGA
AGATGTCACTCCAATTCCATCAGATTCAACACGCCGAAAGGGTGGCAGACGTGGTCGCCG
ATTGTAA
>g9932.t3 Gene=g9932 Length=144
MAPRKNKVAKEEVQVSLGPQVREGEIVFGVAHIYASFNDTFVHVTDLSGKETISRVTGGM
KVKADRDEASPYDVAEKCKTLGITALHIKLRATGGNRTKTPGPGAQSALRALARSNMKIG
RIEDVTPIPSDSTRRKGGRRGRRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9932.t3 | Gene3D | G3DSA:3.30.420.80 | - | 1 | 144 | 6.8E-76 |
| 4 | g9932.t3 | Hamap | MF_01310 | 30S ribosomal protein S11 [rpsK]. | 4 | 141 | 16.695108 |
| 9 | g9932.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 124 | 144 | - |
| 2 | g9932.t3 | PANTHER | PTHR11759:SF37 | BNAA05G27530D PROTEIN | 4 | 144 | 3.1E-91 |
| 3 | g9932.t3 | PANTHER | PTHR11759 | 40S RIBOSOMAL PROTEIN S14/30S RIBOSOMAL PROTEIN S11 | 4 | 144 | 3.1E-91 |
| 7 | g9932.t3 | PIRSF | PIRSF002131 | RPS11p_RPS11a_RPS14e_RPS11o | 1 | 141 | 1.6E-29 |
| 1 | g9932.t3 | Pfam | PF00411 | Ribosomal protein S11 | 29 | 140 | 2.6E-37 |
| 8 | g9932.t3 | ProSitePatterns | PS00054 | Ribosomal protein S11 signature. | 109 | 131 | - |
| 5 | g9932.t3 | SUPERFAMILY | SSF53137 | Translational machinery components | 24 | 142 | 4.32E-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.
