Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 40S ribosomal protein S9.

Parent gene

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 g7115 g7115.t213 TTS g7115.t213 21263047 21263047
chr_2 g7115 g7115.t213 isoform g7115.t213 21264028 21264390
chr_2 g7115 g7115.t213 exon g7115.t213.exon1 21264028 21264390
chr_2 g7115 g7115.t213 cds g7115.t213.CDS1 21264030 21264161
chr_2 g7115 g7115.t213 TSS g7115.t213 21264887 21264887

Sequences

>g7115.t213 Gene=g7115 Length=363
TCCTAGACGTCCATATGAAAAACCTCGCTTGGATGCTGAATTAAGAGTTATCGGACAATT
TGGTCTCCGTAACAAGCGTGAGGTATGGCGAGTCAAGTATACATTAGCAAAGATCCGTAA
AGCTGCTCGTGAATTGCTTACACTTGAAGAGAAAGATGAGAAACGTTTGTTTCAAGGAAA
TGCTCTTCTTCGTCGTCTTGTTCGTATTGGTGTGTTAGACGAATCACGCATGAAGCTCGA
TTACGTTCTTGGTTTAAAAATTGAAGATTTCTTAGAACGTCGCTTGCAGACTCAAGTTTT
CAAACTCGGTTTGGCTAAATCTTATCATCATGCTCGCGTTCTTATCCGACAAAGACATAT
TCG

>g7115.t213 Gene=g7115 Length=44
MKLDYVLGLKIEDFLERRLQTQVFKLGLAKSYHHARVLIRQRHI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7115.t213 Gene3D G3DSA:3.10.290.10 - 16 44 1.5E-5
2 g7115.t213 PANTHER PTHR11831:SF5 40S RIBOSOMAL PROTEIN S9 1 44 7.7E-23
3 g7115.t213 PANTHER PTHR11831 30S 40S RIBOSOMAL PROTEIN 1 44 7.7E-23
1 g7115.t213 Pfam PF01479 S4 domain 17 44 2.6E-5
5 g7115.t213 ProSitePatterns PS00632 Ribosomal protein S4 signature. 15 39 -
4 g7115.t213 SUPERFAMILY SSF55174 Alpha-L RNA-binding motif 2 44 1.11E-11

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:0003723 RNA binding MF
GO:0019843 rRNA binding 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