Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 60S ribosomal protein L22.

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 g11591 g11591.t41 isoform g11591.t41 17381187 17381704
chr_1 g11591 g11591.t41 exon g11591.t41.exon1 17381187 17381382
chr_1 g11591 g11591.t41 TSS g11591.t41 17381188 17381188
chr_1 g11591 g11591.t41 cds g11591.t41.CDS1 17381206 17381382
chr_1 g11591 g11591.t41 exon g11591.t41.exon2 17381510 17381704
chr_1 g11591 g11591.t41 cds g11591.t41.CDS2 17381510 17381704
chr_1 g11591 g11591.t41 TTS g11591.t41 17381807 17381807

Sequences

>g11591.t41 Gene=g11591 Length=391
AGATATAGCTTATAGCAACATGGCAATTGCTAAGAAAATTGATCCAGCCTCAGCCAAGTC
AAAGACCACTGGCAAAGCTATTCAGAAGAAACAAACTCTACGAGGAAAGAGTTTGAAAAA
GAAGAAAGAACATCTTCGTTATGGAATTGACTGCACAAACATTGCAGAAGACAACATTTT
GGATGTGGCTGATTTTAGACAAAAATTCAAAATTTACGTCAGCTCAGATATTCACTTTTC
AAAACGTTATTTGAAGTATTTGACAAAGAAGTACTTGAAGAAACACAGTCTTCGTGATTG
GATTCGTGTTGTCTCAAATGACAAGGATTTATATGAATTGCGCTACTTCAGAATCGGATC
TAATGATGATGATGAGGAAGAAAACGAATAA

>g11591.t41 Gene=g11591 Length=123
MAIAKKIDPASAKSKTTGKAIQKKQTLRGKSLKKKKEHLRYGIDCTNIAEDNILDVADFR
QKFKIYVSSDIHFSKRYLKYLTKKYLKKHSLRDWIRVVSNDKDLYELRYFRIGSNDDDEE
ENE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g11591.t41 Gene3D G3DSA:3.30.1360.210 - 25 61 3.5E-5
8 g11591.t41 Gene3D G3DSA:3.30.1360.210 - 62 123 8.6E-26
6 g11591.t41 MobiDBLite mobidb-lite consensus disorder prediction 1 32 -
3 g11591.t41 PANTHER PTHR10064 60S RIBOSOMAL PROTEIN L22 9 61 2.1E-37
5 g11591.t41 PANTHER PTHR10064:SF0 60S RIBOSOMAL PROTEIN L22-RELATED 9 61 2.1E-37
2 g11591.t41 PANTHER PTHR10064 60S RIBOSOMAL PROTEIN L22 60 121 2.1E-37
4 g11591.t41 PANTHER PTHR10064:SF0 60S RIBOSOMAL PROTEIN L22-RELATED 60 121 2.1E-37
1 g11591.t41 Pfam PF01776 Ribosomal L22e protein family 61 119 6.7E-24

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