Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 40S ribosomal protein S23.

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 g9066 g9066.t33 TTS g9066.t33 35013961 35013961
chr_2 g9066 g9066.t33 isoform g9066.t33 35014277 35015255
chr_2 g9066 g9066.t33 exon g9066.t33.exon1 35014277 35014474
chr_2 g9066 g9066.t33 cds g9066.t33.CDS1 35014279 35014474
chr_2 g9066 g9066.t33 exon g9066.t33.exon2 35014697 35014854
chr_2 g9066 g9066.t33 cds g9066.t33.CDS2 35014697 35014722
chr_2 g9066 g9066.t33 exon g9066.t33.exon3 35015252 35015255
chr_2 g9066 g9066.t33 TSS g9066.t33 35015280 35015280

Sequences

>g9066.t33 Gene=g9066 Length=360
ATGGGAAAACCAAGAGGAATTCGAACTGCTCGTAAGCTTAAAACACACAGACGTGACCAA
CGATGGGCTGACAAAGATTATAAGAAAGCTCACTTGGGTACTCGCTGGAAGGCAAATCCA
TTTGGAGGTGCATCTCATGCTAAGGGAATCGTTCTTGAAAAATGGTGTTGAAGCTAAACA
GCCAAACTCAGCTATCCGCAAGTGCGTTCGTGTACAATTGATCAAGAATGGCAAGAAAAT
TACCGCTTTCGTTCCTCGTGATGGTTGCTTAAACTATATTGAAGAAAATGACGAAGTTTT
GGTTGCAGGTTTTGGTCGTAAAGGTCACGCTGTTGGTGATATTCCCGGAGTAAGATTTAA

>g9066.t33 Gene=g9066 Length=74
MLRESFLKNGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPRDGCLNYIEENDEVLVAGFG
RKGHAVGDIPGVRF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g9066.t33 Gene3D G3DSA:2.40.50.140 - 3 74 2.8E-39
2 g9066.t33 PANTHER PTHR11652:SF59 BNACNNG03140D PROTEIN 8 74 5.2E-40
3 g9066.t33 PANTHER PTHR11652 30S RIBOSOMAL PROTEIN S12 FAMILY MEMBER 8 74 5.2E-40
1 g9066.t33 Pfam PF00164 Ribosomal protein S12/S23 8 74 3.1E-34
5 g9066.t33 ProSitePatterns PS00055 Ribosomal protein S12 signature. 14 21 -
4 g9066.t33 SUPERFAMILY SSF50249 Nucleic acid-binding proteins 9 74 8.57E-21

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