General information for g6209.t11
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L14.
Parent gene
- The parent gene g6209 is located on chr_2: 15266416..15272034 (+ 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_2 | g6209 | g6209.t11 | TSS | g6209.t11 | 15265504 | 15265504 |
| chr_2 | g6209 | g6209.t11 | isoform | g6209.t11 | 15265527 | 15266677 |
| chr_2 | g6209 | g6209.t11 | exon | g6209.t11.exon1 | 15265527 | 15265529 |
| chr_2 | g6209 | g6209.t11 | cds | g6209.t11.CDS1 | 15265527 | 15265529 |
| chr_2 | g6209 | g6209.t11 | exon | g6209.t11.exon2 | 15265871 | 15265972 |
| chr_2 | g6209 | g6209.t11 | cds | g6209.t11.CDS2 | 15265871 | 15265972 |
| chr_2 | g6209 | g6209.t11 | exon | g6209.t11.exon3 | 15266175 | 15266369 |
| chr_2 | g6209 | g6209.t11 | cds | g6209.t11.CDS3 | 15266175 | 15266369 |
| chr_2 | g6209 | g6209.t11 | exon | g6209.t11.exon4 | 15266437 | 15266677 |
| chr_2 | g6209 | g6209.t11 | cds | g6209.t11.CDS4 | 15266437 | 15266442 |
| chr_2 | g6209 | g6209.t11 | TTS | g6209.t11 | 15266763 | 15266763 |
Sequences
>g6209.t11 Gene=g6209 Length=541
ATGGGTTTTACAAGATTCGTTGAAACCGGACGTATCGCACGTATTTCACGTGGACGCTAC
AAGGGAAAGCTGGTGGCGATTGTTGATGTCATTGATCAGAACAGAGTACTCATCGATGGT
CCATTGACTCGAGTTCCTCGTCAACAATATCCAGTTAGCCATTTACATCTAACAAAGTTT
GTTGTCAAATTTCCATTTACGGCACCAACACGTATTGTGAAAAAAGCTCTAGAGGATTTC
AAGATTAAAGAAAAATGGAGTCAAACACTTTGGGCAGAACGCGCAAAAGCAAAGAGATTG
GGATGATTTCGAGCGCTTCAAGTTGCGATTAGTTAAGCGTTCAAAGAATCGCATGATCGA
GCCAGTCTTTTCAAAGCTCAAGAAAGAAGCATCTAAGAACGGCACACTCTATGGAAAACC
TAAAAAGGGAACTAAACCATTGCCACCCAAGAAACCCAAAGTAGAAGGAGCTAAGAAAAA
GAAGAAGGTTAACAAGAAAAAACCTGGCAGTGCTGCAGCAAAGAAGCCAGCCAAGAAGTA
A
>g6209.t11 Gene=g6209 Length=101
MGFTRFVETGRIARISRGRYKGKLVAIVDVIDQNRVLIDGPLTRVPRQQYPVSHLHLTKF
VVKFPFTAPTRIVKKALEDFKIKEKWSQTLWAERAKAKRLG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g6209.t11 | CDD | cd06088 | KOW_RPL14 | 7 | 81 | 0.0e+00 |
| 6 | g6209.t11 | Gene3D | G3DSA:2.30.30.30 | - | 1 | 86 | 0.0e+00 |
| 3 | g6209.t11 | PANTHER | PTHR11127:SF2 | 60S RIBOSOMAL PROTEIN L14 | 2 | 98 | 0.0e+00 |
| 4 | g6209.t11 | PANTHER | PTHR11127 | 60S RIBOSOMAL PROTEIN L14 | 2 | 98 | 0.0e+00 |
| 2 | g6209.t11 | Pfam | PF00467 | KOW motif | 10 | 39 | 3.1e-05 |
| 1 | g6209.t11 | Pfam | PF01929 | Ribosomal protein L14 | 46 | 98 | 0.0e+00 |
| 5 | g6209.t11 | SUPERFAMILY | SSF50104 | Translation proteins SH3-like domain | 5 | 95 | 0.0e+00 |
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:0003723 | RNA binding | MF |
| GO:0006412 | translation | BP |
| GO:0003735 | structural constituent of ribosome | MF |
KEGG
Orthology
- This transcript has been annotated with K02875 (large subunit ribosomal protein L14e)
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.
