General information for g11475.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11475 is located on chr_1: 16439445..16440161 (+ 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 | g11475 | g11475.t5 | isoform | g11475.t5 | 16439263 | 16440068 |
| chr_1 | g11475 | g11475.t5 | exon | g11475.t5.exon1 | 16439263 | 16439283 |
| chr_1 | g11475 | g11475.t5 | exon | g11475.t5.exon2 | 16439467 | 16439567 |
| chr_1 | g11475 | g11475.t5 | exon | g11475.t5.exon3 | 16439847 | 16440068 |
| chr_1 | g11475 | g11475.t5 | cds | g11475.t5.CDS1 | 16439925 | 16440068 |
| chr_1 | g11475 | g11475.t5 | TTS | g11475.t5 | 16440170 | 16440170 |
| chr_1 | g11475 | g11475.t5 | TSS | g11475.t5 | NA | NA |
Sequences
>g11475.t5 Gene=g11475 Length=344
TCGATTTGAAGCAAGAGGTACGTGTTGGTCTAAACAAGGGCCATAAAACCACCAAAATAA
AGCAAAAACAATATCGTGGCGAACGAAAAGAGAAAGGCATACGTCAGGCTCGCAAGAAGA
ACATTCAAACAAAACACACTAAATTCGTACGCGATCTCGTCCGCGAAGTAGTTGGTCACG
CTCCCTATGAACGCCGAACAATGGAATTGTTAAAAGTATCAAAGGATAAGCGTGCACTCA
AGTTCTTGAAGAGACGATTGGGAACACACATCCGTGCAAAGAGAAAGCGTGAAGAGCTCG
GAACAATCTTGGCTCATATGAGAAAAGCAGCTGCACATAAATAG
>g11475.t5 Gene=g11475 Length=47
MELLKVSKDKRALKFLKRRLGTHIRAKRKREELGTILAHMRKAAAHK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g11475.t5 | Gene3D | G3DSA:1.10.10.1760 | - | 1 | 47 | 0 |
| 2 | g11475.t5 | PANTHER | PTHR10114:SF9 | - | 1 | 47 | 0 |
| 3 | g11475.t5 | PANTHER | PTHR10114 | 60S RIBOSOMAL PROTEIN L36 | 1 | 47 | 0 |
| 1 | g11475.t5 | Pfam | PF01158 | Ribosomal protein L36e | 1 | 42 | 0 |
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