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.t7 isoform g7619.t7 24958230 24959021
chr_2 g7619 g7619.t7 exon g7619.t7.exon1 24958230 24958423
chr_2 g7619 g7619.t7 TTS g7619.t7 24958235 24958235
chr_2 g7619 g7619.t7 cds g7619.t7.CDS1 24958398 24958423
chr_2 g7619 g7619.t7 exon g7619.t7.exon2 24958492 24958765
chr_2 g7619 g7619.t7 cds g7619.t7.CDS2 24958492 24958765
chr_2 g7619 g7619.t7 exon g7619.t7.exon3 24959000 24959021
chr_2 g7619 g7619.t7 TSS g7619.t7 24959058 24959058

Sequences

>g7619.t7 Gene=g7619 Length=490
TCTTCAATTTTTATAATTAAAGATGACGACTGCAACAATTCGTACAAGAAAGTTCATGAC
GAACCGTCTATTATGTCGCAAGCAAATGGTTTGTGACGTTCTTCACCCAGGTTTAGCATC
AGTCTCGAAGAAGGAAATTCGCGAGAAATTGGCTACTATGTACAAGGTTACGCCAGATGT
TGTATTCGTTTTTGGATTTAGAACTAACTTTGGAGGCGGAAAATCATCAGGCTTCGCACT
CATTTACGATACACTGGATTATGCCAAGAAATTTGAACCAAAACACAGATTGGCTCAAAG
TTCGCGGTACCAAAAAAGCTAAAGTTGGTCAAGCAGCCAAGAAGTAAATTAATGGATTTA
ATAACAATTCAACTACACTTTCCATTAAGATTATTTACATCTACGATTCTGTATGTATTG
TGCACATATAATATCATTGAAATGAAGAAATAAATGTGCGATATGCATTAATCAATTCAA
ACTGGAAAAA

>g7619.t7 Gene=g7619 Length=99
MTTATIRTRKFMTNRLLCRKQMVCDVLHPGLASVSKKEIREKLATMYKVTPDVVFVFGFR
TNFGGGKSSGFALIYDTLDYAKKFEPKHRLAQSSRYQKS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g7619.t7 Gene3D G3DSA:3.30.70.3370 - 1 99 4.9E-50
3 g7619.t7 Hamap MF_00545 30S ribosomal protein S24e [rps24e]. 2 99 17.642054
2 g7619.t7 PANTHER PTHR10496 40S RIBOSOMAL PROTEIN S24 2 98 2.2E-48
1 g7619.t7 Pfam PF01282 Ribosomal protein S24e 23 98 1.8E-35
5 g7619.t7 ProSitePatterns PS00529 Ribosomal protein S24e signature. 63 85 -
4 g7619.t7 SUPERFAMILY SSF54189 Ribosomal proteins S24e, L23 and L15e 5 97 6.12E-37

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