Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 40S ribosomal protein S10b.

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_1 g9278 g9278.t14 TSS g9278.t14 1398732 1398732
chr_1 g9278 g9278.t14 isoform g9278.t14 1398759 1399725
chr_1 g9278 g9278.t14 exon g9278.t14.exon1 1398759 1398792
chr_1 g9278 g9278.t14 exon g9278.t14.exon2 1399162 1399345
chr_1 g9278 g9278.t14 cds g9278.t14.CDS1 1399284 1399345
chr_1 g9278 g9278.t14 exon g9278.t14.exon3 1399400 1399631
chr_1 g9278 g9278.t14 cds g9278.t14.CDS2 1399400 1399631
chr_1 g9278 g9278.t14 exon g9278.t14.exon4 1399687 1399725
chr_1 g9278 g9278.t14 cds g9278.t14.CDS3 1399687 1399725
chr_1 g9278 g9278.t14 TTS g9278.t14 1399800 1399800

Sequences

>g9278.t14 Gene=g9278 Length=489
GAAGATATTCAAAGTAATTCAAAGTGAGTTTATACACATAAAGTGGCGATCTATGAACAT
CTCTTCAAAGAAGGAGTTCTTGTTGCACAAAAGGATTTTCATGCACCAAAACATCCCGAA
CTCGAGAGCGTTCCAAATCTTCATGTAATTAAGACTATGCAGTCATTGAAATCAAGAAAT
CTTGTTAAGGAACAATTTGCATGGAGACATTATTACTGGTATCTCACAAATGAAGGCATT
GAATATTTGCGTCAATATCTTCATTTGCCACCAGAAATCGTTCCATCAACATTGAAGCGA
ACAACTCGCTCAGATGCTGCTCGTCCTCGCGCTGCTCCACGTTCAGATGGACCAAAATCA
GGAGAAGATCGTCAAGCATACAGACGTGCACCAGGGCAATCGTCAGACAAAAAAGCCGAT
GTTGGTGCTGGTGCAGCTGATATTGAATTGCGTGGTGGATTCGGTCGTGGCTCAAGAGGC
CCACAGTAA

>g9278.t14 Gene=g9278 Length=110
MQSLKSRNLVKEQFAWRHYYWYLTNEGIEYLRQYLHLPPEIVPSTLKRTTRSDAARPRAA
PRSDGPKSGEDRQAYRRAPGQSSDKKADVGAGAADIELRGGFGRGSRGPQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9278.t14 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 1 61 2.8E-27
4 g9278.t14 MobiDBLite mobidb-lite consensus disorder prediction 41 110 -
3 g9278.t14 MobiDBLite mobidb-lite consensus disorder prediction 51 83 -
2 g9278.t14 PANTHER PTHR12146 40S RIBOSOMAL PROTEIN S10 1 106 5.8E-34
1 g9278.t14 Pfam PF03501 Plectin/S10 domain 1 49 2.5E-25

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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