Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 60S ribosomal protein L26.

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 g14071 g14071.t11 TSS g14071.t11 34478846 34478846
chr_1 g14071 g14071.t11 isoform g14071.t11 34478860 34479495
chr_1 g14071 g14071.t11 exon g14071.t11.exon1 34478860 34478952
chr_1 g14071 g14071.t11 cds g14071.t11.CDS1 34478860 34478952
chr_1 g14071 g14071.t11 exon g14071.t11.exon2 34479004 34479027
chr_1 g14071 g14071.t11 cds g14071.t11.CDS2 34479004 34479027
chr_1 g14071 g14071.t11 exon g14071.t11.exon3 34479211 34479495
chr_1 g14071 g14071.t11 cds g14071.t11.CDS3 34479211 34479495
chr_1 g14071 g14071.t11 TTS g14071.t11 34479591 34479591

Sequences

>g14071.t11 Gene=g14071 Length=402
ATGAAGTTTAATAGAAACGTCTCATCATCGCGTCGCAAGAGTCGTCTTCGACATTTTACA
GCTCCATCGCATATTCGTAGAAAGATAATGTCAATTCGTAAAGATGATGAAGTTCAAGTC
GTTCGTGGTCACTATAAAGGAAATCAAGTTGGCAAAGTAGTGCAAGTGTACAGAAAGAAA
TTTGTTGTGTACATTGAACGAATCCAGCGCGAGAAGGCAAATGGAACTAATGTTTATGTT
GGAATTCATCCATCAAAACTTTTGATTGTCAAACTCAAGATGGACAAAGACCGCAAACGC
ATCTTGGATCGCAGAGCAAAGGGACGTTTGGCTGCTCTTGGAAAAGATAAGGGCAAATAT
ACAGAAGAAACAGCTGCTGCTCCAATGGAAACTACATCCTAA

>g14071.t11 Gene=g14071 Length=133
MKFNRNVSSSRRKSRLRHFTAPSHIRRKIMSIRKDDEVQVVRGHYKGNQVGKVVQVYRKK
FVVYIERIQREKANGTNVYVGIHPSKLLIVKLKMDKDRKRILDRRAKGRLAALGKDKGKY
TEETAAAPMETTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g14071.t11 CDD cd06089 KOW_RPL26 35 89 3.22106E-13
9 g14071.t11 Gene3D G3DSA:2.30.30.30 - 1 130 4.8E-47
3 g14071.t11 PANTHER PTHR11143 60S RIBOSOMAL PROTEIN L26 FAMILY MEMBER 1 31 2.1E-53
5 g14071.t11 PANTHER PTHR11143:SF10 60S RIBOSOMAL PROTEIN L26-LIKE 1 1 31 2.1E-53
4 g14071.t11 PANTHER PTHR11143 60S RIBOSOMAL PROTEIN L26 FAMILY MEMBER 30 124 2.1E-53
6 g14071.t11 PANTHER PTHR11143:SF10 60S RIBOSOMAL PROTEIN L26-LIKE 1 30 124 2.1E-53
1 g14071.t11 Pfam PF16906 Ribosomal proteins L26 eukaryotic, L24P archaeal 8 105 6.4E-22
2 g14071.t11 Pfam PF00467 KOW motif 34 66 1.2E-7
11 g14071.t11 ProSitePatterns PS01108 Ribosomal protein L24 signature. 35 53 -
12 g14071.t11 SMART SM00739 kow_9 31 59 0.007
7 g14071.t11 SUPERFAMILY SSF50104 Translation proteins SH3-like domain 8 109 7.52E-26
8 g14071.t11 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 10 -
13 g14071.t11 TIGRFAM TIGR01080 rplX_A_E: ribosomal protein uL24 30 106 6.7E-26

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:0015934 large ribosomal subunit CC
GO:0006412 translation BP
GO:0003735 structural constituent of ribosome MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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