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 g9524 g9524.t40 TTS g9524.t40 3888292 3888292
chr_1 g9524 g9524.t40 isoform g9524.t40 3888353 3889289
chr_1 g9524 g9524.t40 exon g9524.t40.exon1 3888353 3888673
chr_1 g9524 g9524.t40 cds g9524.t40.CDS1 3888606 3888673
chr_1 g9524 g9524.t40 exon g9524.t40.exon2 3889029 3889289
chr_1 g9524 g9524.t40 cds g9524.t40.CDS2 3889029 3889092
chr_1 g9524 g9524.t40 TSS g9524.t40 3890000 3890000

Sequences

>g9524.t40 Gene=g9524 Length=582
GTCGTGGCGGACGTGGACGAGGTGACAAAGAAGGAAATCAAAAAGAATGGGTACCAGTCA
CTAAATTGGGTCGTTTAGTTCGTGATGGAAAGATTCGTTCATTGGAAGAAATTTACTTGT
ACTCATTGCCAATCAAAGAATTCGAAATCATTGATTTCTTCTTGGGACGTTCATTGCGTG
ATGAGGTTTTGAAGATCATGCCTGTTCAGAAACAAACACGTGCCGGTCAACGTACGCGCT
TCAAGGCTTTCGTTGCTATCGGTTACTGGCAAATGTGGTTCAGTTCAAGTCAAATTGATT
CCAGCACCAAGAGGAACAGGCATTGTTAGTGCTCCAGTTCCAAAGAAATTACTTCAAATG
GCTGGTATTGAAGATTGCTACACTCAATGTCGCGGTTCAACTACAACTTTGGGTAACTTC
GCAAAAGCCACTTACTCAGCTATCATGAAGACTTATGCTTTCTTGACACCTGATTTGTGG
AAAGAAATTCCTTTAAGCAAATCACCATACGAAGTTTATGCTGACTTCCTTGCGAAACCA
GCTGGTAAAACTGGAGGCATTCGCAACATTGATTTGTCTTAA

>g9524.t40 Gene=g9524 Length=43
MPVQKQTRAGQRTRFKAFVAIGYWQMWFSSSQIDSSTKRNRHC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g9524.t40 Gene3D G3DSA:3.30.160.770 - 1 40 1e-07
1 g9524.t40 Pfam PF00333 Ribosomal protein S5, N-terminal domain 1 22 8e-07

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:0003723 RNA binding MF
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