Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t9 isoform g7619.t9 24958230 24959058
chr_2 g7619 g7619.t9 exon g7619.t9.exon1 24958230 24958765
chr_2 g7619 g7619.t9 TTS g7619.t9 24958235 24958235
chr_2 g7619 g7619.t9 cds g7619.t9.CDS1 24958373 24958765
chr_2 g7619 g7619.t9 exon g7619.t9.exon2 24959000 24959058
chr_2 g7619 g7619.t9 TSS g7619.t9 24959058 24959058

Sequences

>g7619.t9 Gene=g7619 Length=595
CTTTTCAAAAATTCAGTCGTGCTATTTGCATTGAAATTCTTCAATTTTTATAATTAAAGA
TGACGACTGCAACAATTCGTACAAGAAAGTTCATGACGAACCGTCTATTATGTCGCAAGC
AAATGGTTTGTGACGTTCTTCACCCAGGTTTAGCATCAGTCTCGAAGAAGGAAATTCGCG
AGAAATTGGCTACTATGTACAAGGTTACGCCAGATGTTGTATTCGTTTTTGGATTTAGAA
CTAACTTTGGAGGCGGAAAATCATCAGGCTTCGCACTCATTTACGATACACTGGATTATG
CCAAGAAATTTGAACCAAAACACAGATTGGCTCGTCATGGACTCTATGAAGTTAAGAAGA
TCACACGCAAACAGCGCAAAGAACGCAAGAACAGAATGAAGAAAGTTCGCGGTACCAAAA
AAGCTAAAGTTGGTCAAGCAGCCAAGAAGTAAATTAATGGATTTAATAACAATTCAACTA
CACTTTCCATTAAGATTATTTACATCTACGATTCTGTATGTATTGTGCACATATAATATC
ATTGAAATGAAGAAATAAATGTGCGATATGCATTAATCAATTCAAACTGGAAAAA

>g7619.t9 Gene=g7619 Length=130
MTTATIRTRKFMTNRLLCRKQMVCDVLHPGLASVSKKEIREKLATMYKVTPDVVFVFGFR
TNFGGGKSSGFALIYDTLDYAKKFEPKHRLARHGLYEVKKITRKQRKERKNRMKKVRGTK
KAKVGQAAKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g7619.t9 Gene3D G3DSA:3.30.70.3370 - 1 130 6.7E-67
3 g7619.t9 Hamap MF_00545 30S ribosomal protein S24e [rps24e]. 2 103 18.826111
6 g7619.t9 MobiDBLite mobidb-lite consensus disorder prediction 102 130 -
7 g7619.t9 MobiDBLite mobidb-lite consensus disorder prediction 103 130 -
2 g7619.t9 PANTHER PTHR10496 40S RIBOSOMAL PROTEIN S24 2 128 3.8E-65
1 g7619.t9 Pfam PF01282 Ribosomal protein S24e 23 100 6.5E-39
5 g7619.t9 ProSitePatterns PS00529 Ribosomal protein S24e signature. 63 85 -
4 g7619.t9 SUPERFAMILY SSF54189 Ribosomal proteins S24e, L23 and L15e 5 104 2.05E-39

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

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.

Raw TPM values