Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 60S ribosomal protein L10a.

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_3 g3791 g3791.t14 TTS g3791.t14 27969226 27969226
chr_3 g3791 g3791.t14 isoform g3791.t14 27969305 27969836
chr_3 g3791 g3791.t14 exon g3791.t14.exon1 27969305 27969479
chr_3 g3791 g3791.t14 cds g3791.t14.CDS1 27969441 27969479
chr_3 g3791 g3791.t14 exon g3791.t14.exon2 27969532 27969836
chr_3 g3791 g3791.t14 cds g3791.t14.CDS2 27969532 27969828
chr_3 g3791 g3791.t14 TSS g3791.t14 27970567 27970567

Sequences

>g3791.t14 Gene=g3791 Length=480
GTCCAAAAATGCAAGTTTGCATTTTGGGAGATCAACAACATTGTGACGAAGCTAAGGCAA
ACGACGTTCCTTTTATGGACGCTGAAGCTTTGAAAAAACTCAACAAAAACAAGAAGTTGG
TCAAGAAACTCGCCAAGAAATACGATGCTTTCCTTGCTTCAGAATCATTGATTAAACAAA
TTCCAAGATTGTTGGGTCCAGGTTTGAACAAGGCTGGTAAATTCCCTGGTTTATTGCAAC
ACAATGAATCAATGACTCAAAAAATTGATGAAGTTAAGGCAACAATCAAGTTCCAAATGA
AGAAGAAAGGTCTTGTGTCTCTCAGTCGCTGTTGGTCATGTTAACATGACACCTGATGAG
CTCGCTCAAAATGTTCACTTGTCAATCAACTTCATGGTTTCGCTTTTGAAGAAGCACTGG
CAAAATGTGCGTTCACTTCATATTAAATCATCAATGGGACCACCACAACGTCTCTATTAA

>g3791.t14 Gene=g3791 Length=111
MQVCILGDQQHCDEAKANDVPFMDAEALKKLNKNKKLVKKLAKKYDAFLASESLIKQIPR
LLGPGLNKAGKFPGLLQHNESMTQKIDEVKATIKFQMKKKGLVSLSRCWSC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3791.t14 Gene3D G3DSA:3.40.50.790 - 1 93 9.1E-40
2 g3791.t14 PANTHER PTHR23105:SF154 60S RIBOSOMAL PROTEIN L10A 2 100 1.5E-49
3 g3791.t14 PANTHER PTHR23105 RIBOSOMAL PROTEIN L7AE FAMILY MEMBER 2 100 1.5E-49
1 g3791.t14 Pfam PF00687 Ribosomal protein L1p/L10e family 2 104 3.0E-17
5 g3791.t14 ProSitePatterns PS01199 Ribosomal protein L1 signature. 55 74 -
4 g3791.t14 SUPERFAMILY SSF56808 Ribosomal protein L1 1 104 3.92E-29

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