Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g13545 g13545.t7 TTS g13545.t7 30802222 30802222
chr_1 g13545 g13545.t7 isoform g13545.t7 30802285 30803356
chr_1 g13545 g13545.t7 exon g13545.t7.exon1 30802285 30802608
chr_1 g13545 g13545.t7 cds g13545.t7.CDS1 30802285 30802566
chr_1 g13545 g13545.t7 exon g13545.t7.exon2 30803034 30803106
chr_1 g13545 g13545.t7 exon g13545.t7.exon3 30803342 30803356
chr_1 g13545 g13545.t7 TSS g13545.t7 30803370 30803370

Sequences

>g13545.t7 Gene=g13545 Length=412
GCTTCGATTCAAAAGGCAATTACACATTCGTGGTCAGCAAAACCATGTGTTGGAAGTCCA
ACCAGAGGAAACTGTTTCAATTATTAAGGCTAAATTAGCAGTTCTTGAAAATGTTGACAT
CAATACTGAAATGACACTTGCTTGTGAAGGCATTATTCTCGCTGATAACGATACAGTTTC
AGAACTCAGCAATGTTGAATTAGACCTTACAATCCCACTTCTTGGTGGTAAAGTTCACGG
TTCTTTGGCACGTGCTGGAAAAGTTAAAGGACAAACACCAAAAGTAGAGAAACAGGAAAA
GAGAAAGAAGAAGACAGGACGTGCTAAGAGACGCATTCAATTCAACCGCCGTTTTGCTAA
TGTTGTCCAAGGCTTTGGTCGCAAACGTGGACCTAACGCTAATTCCTCATAA

>g13545.t7 Gene=g13545 Length=93
MTLACEGIILADNDTVSELSNVELDLTIPLLGGKVHGSLARAGKVKGQTPKVEKQEKRKK
KTGRAKRRIQFNRRFANVVQGFGRKRGPNANSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g13545.t7 MobiDBLite mobidb-lite consensus disorder prediction 42 69 -
2 g13545.t7 PANTHER PTHR12650 40S RIBOSOMAL PROTEIN S30/UBIQUITIN-LIKE PROTEIN FUBI 21 92 3.5E-36
3 g13545.t7 PANTHER PTHR12650:SF15 40S RIBOSOMAL PROTEIN S30 21 92 3.5E-36
1 g13545.t7 Pfam PF04758 Ribosomal protein S30 34 91 6.5E-29

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. There were no conditions that were differentially expressed