General information for g9932.t12
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.t12 | TSS | g9932.t12 | 6069379 | 6069379 |
| chr_1 | g9932 | g9932.t12 | isoform | g9932.t12 | 6069380 | 6073992 |
| chr_1 | g9932 | g9932.t12 | exon | g9932.t12.exon1 | 6069380 | 6069650 |
| chr_1 | g9932 | g9932.t12 | cds | g9932.t12.CDS1 | 6069414 | 6069650 |
| chr_1 | g9932 | g9932.t12 | exon | g9932.t12.exon2 | 6069726 | 6070061 |
| chr_1 | g9932 | g9932.t12 | cds | g9932.t12.CDS2 | 6069726 | 6069944 |
| chr_1 | g9932 | g9932.t12 | exon | g9932.t12.exon3 | 6073931 | 6073992 |
| chr_1 | g9932 | g9932.t12 | TTS | g9932.t12 | NA | NA |
Sequences
>g9932.t12 Gene=g9932 Length=669
ATTTCAATTCGAGTTATTCAGATAGTGAATAAACATGGCTCCAAGAAAGAATAAAGTTGC
GAAAGAAGAAGTTCAAGTATCACTCGGACCTCAAGTTCGTGAAGGAGAAATTGTTTTCGG
TGTTGCACACATCTATGCTAGTTTCAATGATACTTTTGTTCATGTCACCGATTTATCAGG
CAAAGAAACAATTTCACGCGTTACTGGCGGTATGAAAGTAAAAGCCGATCGTGATGAGGC
ATCTCCCTATGCTGCTATGTTGGCTGCACAAGATGTTGCTGAAAAATGCAAAACTCTTGG
AATCACAGCCCTTCACATTAAATTACGTGCAACTGGTGGAAACAGAACAAAAACACCTGG
ACCAGGAGCTCAATCAGCTTTACGTGCTTTGGCTCGTTCAAACATGAAAATCGGTCGCAT
TGAAGATGTCACTCCAATTCCATCAGATTCAACACGCCGAAAGGGTGGCAGACGTGGTCG
CCGATTGTAAATTAACATCTTTTTGCTGCATAACAAGTTTACTGAACATTCAATATTACT
TGCATTAACTTTCACCATTCAGATTGAAATGCAAAAAGGCATAAAAATGCATAATAAAGT
TATGAACCTATCATCCTACTATCTCACTTCTAATACTCGTATACTTAAAGTTCTAATGCT
TGATCAATA
>g9932.t12 Gene=g9932 Length=151
MAPRKNKVAKEEVQVSLGPQVREGEIVFGVAHIYASFNDTFVHVTDLSGKETISRVTGGM
KVKADRDEASPYAAMLAAQDVAEKCKTLGITALHIKLRATGGNRTKTPGPGAQSALRALA
RSNMKIGRIEDVTPIPSDSTRRKGGRRGRRL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9932.t12 | Gene3D | G3DSA:3.30.420.80 | - | 1 | 151 | 1.5E-85 |
| 4 | g9932.t12 | Hamap | MF_01310 | 30S ribosomal protein S11 [rpsK]. | 4 | 148 | 21.015875 |
| 9 | g9932.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 132 | 151 | - |
| 2 | g9932.t12 | PANTHER | PTHR11759:SF37 | BNAA05G27530D PROTEIN | 4 | 151 | 1.3E-102 |
| 3 | g9932.t12 | PANTHER | PTHR11759 | 40S RIBOSOMAL PROTEIN S14/30S RIBOSOMAL PROTEIN S11 | 4 | 151 | 1.3E-102 |
| 7 | g9932.t12 | PIRSF | PIRSF002131 | RPS11p_RPS11a_RPS14e_RPS11o | 1 | 148 | 6.8E-38 |
| 1 | g9932.t12 | Pfam | PF00411 | Ribosomal protein S11 | 29 | 147 | 1.2E-45 |
| 8 | g9932.t12 | ProSitePatterns | PS00054 | Ribosomal protein S11 signature. | 116 | 138 | - |
| 5 | g9932.t12 | SUPERFAMILY | SSF53137 | Translational machinery components | 25 | 147 | 1.63E-36 |
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 K02955 (small subunit ribosomal protein S14e)
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.
