Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 40S ribosomal protein S24.

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 g7619 g7619.t5 isoform g7619.t5 24958230 24959012
chr_2 g7619 g7619.t5 exon g7619.t5.exon1 24958230 24958765
chr_2 g7619 g7619.t5 TTS g7619.t5 24958235 24958235
chr_2 g7619 g7619.t5 cds g7619.t5.CDS1 24958373 24958702
chr_2 g7619 g7619.t5 exon g7619.t5.exon2 24958996 24959012
chr_2 g7619 g7619.t5 TSS g7619.t5 24959058 24959058

Sequences

>g7619.t5 Gene=g7619 Length=553
TTTATAATTAAAGGTGGATGACGACTGCAACAATTCGTACAAGAAAGTTCATGACGAACC
GTCTATTATGTCGCAAGCAAATGGTTTGTGACGTTCTTCACCCAGGTTTAGCATCAGTCT
CGAAGAAGGAAATTCGCGAGAAATTGGCTACTATGTACAAGGTTACGCCAGATGTTGTAT
TCGTTTTTGGATTTAGAACTAACTTTGGAGGCGGAAAATCATCAGGCTTCGCACTCATTT
ACGATACACTGGATTATGCCAAGAAATTTGAACCAAAACACAGATTGGCTCGTCATGGAC
TCTATGAAGTTAAGAAGATCACACGCAAACAGCGCAAAGAACGCAAGAACAGAATGAAGA
AAGTTCGCGGTACCAAAAAAGCTAAAGTTGGTCAAGCAGCCAAGAAGTAAATTAATGGAT
TTAATAACAATTCAACTACACTTTCCATTAAGATTATTTACATCTACGATTCTGTATGTA
TTGTGCACATATAATATCATTGAAATGAAGAAATAAATGTGCGATATGCATTAATCAATT
CAAACTGGAAAAA

>g7619.t5 Gene=g7619 Length=109
MVCDVLHPGLASVSKKEIREKLATMYKVTPDVVFVFGFRTNFGGGKSSGFALIYDTLDYA
KKFEPKHRLARHGLYEVKKITRKQRKERKNRMKKVRGTKKAKVGQAAKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g7619.t5 Gene3D G3DSA:3.30.70.3370 - 1 109 1.1E-54
5 g7619.t5 MobiDBLite mobidb-lite consensus disorder prediction 81 109 -
6 g7619.t5 MobiDBLite mobidb-lite consensus disorder prediction 82 109 -
2 g7619.t5 PANTHER PTHR10496 40S RIBOSOMAL PROTEIN S24 1 107 2.0E-52
1 g7619.t5 Pfam PF01282 Ribosomal protein S24e 2 79 3.9E-39
4 g7619.t5 ProSitePatterns PS00529 Ribosomal protein S24e signature. 42 64 -
3 g7619.t5 SUPERFAMILY SSF54189 Ribosomal proteins S24e, L23 and L15e 1 83 9.35E-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. There were no conditions that were differentially expressed