Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 60S ribosomal protein L15.

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 g9265 g9265.t9 isoform g9265.t9 1368152 1368943
chr_1 g9265 g9265.t9 exon g9265.t9.exon1 1368152 1368560
chr_1 g9265 g9265.t9 TTS g9265.t9 1368157 1368157
chr_1 g9265 g9265.t9 cds g9265.t9.CDS1 1368447 1368560
chr_1 g9265 g9265.t9 exon g9265.t9.exon2 1368749 1368943
chr_1 g9265 g9265.t9 cds g9265.t9.CDS2 1368749 1368943
chr_1 g9265 g9265.t9 TSS g9265.t9 1369484 1369484

Sequences

>g9265.t9 Gene=g9265 Length=604
GCTCCACGTCCATCACGTCCTGATAAAGCACGTCGTCTTGGTTATCGTGCAAAGCAAGGA
TTTTTGATCTATCGCATTCGTGTTCGCCGTGGAGGTCGCAAACGTCCAGTACACAAGGGA
TGCACATATGGCAAACCAAAAAGTCATGGTGTTAACCAATTGAAGCCATACAGAAATTTG
CAATCTGTTGCTGAGTCGACGATTGGGAGGACTTCGTGTTCTCAATTCATACTGGGTCGC
ACAAGATGCTGCATTCAAATATTACGAAGTCATCTGCATCGATCCATTCCACAATGCTAT
TCGTCGTGATCCTAAAGTTAACTGGATTTGTAATGCTGTTCACAAGCATCGTGAATTACG
CGGACTTACATCTGCCGGAAAGAGCTCACGCGGTATTGGAAAAGGATACAGATATTCACA
AACTATTGGTGGCTCACGTCGTGCTGCATGGCGTCGAAAGAATCGCCTCCATCTCCGTCG
CTATCGTTAAAATGGAAATACACATTAAATCGATTTATTTTGTGTATATTGTTATAAACA
TCTTAACAATTTTTTTCAAAAATGAATAAATTTCATATATCAAAAACAATATGAAACTCA
AAAG

>g9265.t9 Gene=g9265 Length=102
APRPSRPDKARRLGYRAKQGFLIYRIRVRRGGRKRPVHKGCTYGKPKSHGVNQLKPYRNL
QSVAESTIGRTSCSQFILGRTRCCIQILRSHLHRSIPQCYSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g9265.t9 Gene3D G3DSA:3.40.1120.10 Ribosomal protein l15e 1 78 2.3E-32
2 g9265.t9 PANTHER PTHR11847:SF4 60S RIBOSOMAL PROTEIN L15 2 72 9.6E-30
3 g9265.t9 PANTHER PTHR11847 RIBOSOMAL PROTEIN L15 2 72 9.6E-30
1 g9265.t9 Pfam PF00827 Ribosomal L15 2 72 1.4E-26
6 g9265.t9 ProSitePatterns PS01194 Ribosomal protein L15e signature. 8 31 -
5 g9265.t9 SMART SM01384 Ribosomal_L15e_2 1 101 1.0E-8
4 g9265.t9 SUPERFAMILY SSF54189 Ribosomal proteins S24e, L23 and L15e 1 72 7.19E-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

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