Gene loci information

Transcript annotation

  • This transcript has been annotated as 60S ribosomal protein L23.

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 g11289 g11289.t11 TTS g11289.t11 15429083 15429083
chr_1 g11289 g11289.t11 isoform g11289.t11 15429166 15429885
chr_1 g11289 g11289.t11 exon g11289.t11.exon1 15429166 15429491
chr_1 g11289 g11289.t11 cds g11289.t11.CDS1 15429166 15429491
chr_1 g11289 g11289.t11 exon g11289.t11.exon2 15429873 15429885
chr_1 g11289 g11289.t11 cds g11289.t11.CDS2 15429873 15429885
chr_1 g11289 g11289.t11 TSS g11289.t11 15429913 15429913

Sequences

>g11289.t11 Gene=g11289 Length=339
ATGTCGAAGAGAGGTGGTAAAAACTTGTATGTTATTGCTGTTCATGGCATTCGCGGTCGT
TTGAATCGTTTACCTTCAGCTGGTGTTGGTGACATGTTTGTCGCAACTGTAAAGAAGGGT
AAACCAGAATTGAGAAAGAAAGTAATGCCAGCAGTTGTCATTCGGCAGCGAAAACCGTTC
AGACGACGAGATGGAATCTTTATCTATTTTGAAGATAACGCCGGTGTAATTGTCAACAAT
AAAGGTGAAATGAAAGGATCAGCTATTACAGGTCCAGTTGCAAAAGAGTGTGCAGATTTA
TGGCCCCGTATTGCATCAAATGCTGGCTCAATAGCCTAA

>g11289.t11 Gene=g11289 Length=112
MSKRGGKNLYVIAVHGIRGRLNRLPSAGVGDMFVATVKKGKPELRKKVMPAVVIRQRKPF
RRRDGIFIYFEDNAGVIVNNKGEMKGSAITGPVAKECADLWPRIASNAGSIA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g11289.t11 Gene3D G3DSA:2.40.150.20 Ribosomal Protein L14; 2 112 1.2E-54
4 g11289.t11 Hamap MF_01367 50S ribosomal protein L14 [rplN]. 1 112 15.325253
2 g11289.t11 PANTHER PTHR11761 50S/60S RIBOSOMAL PROTEIN L14/L23 4 112 6.8E-62
3 g11289.t11 PANTHER PTHR11761:SF22 60S RIBOSOMAL PROTEIN L23 4 112 6.8E-62
1 g11289.t11 Pfam PF00238 Ribosomal protein L14p/L23e 5 110 2.1E-29
7 g11289.t11 ProSitePatterns PS00049 Ribosomal protein L14 signature. 51 77 -
6 g11289.t11 SMART SM01374 Ribosomal_L14_2 1 112 6.6E-46
5 g11289.t11 SUPERFAMILY SSF50193 Ribosomal protein L14 5 111 3.27E-38

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