Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t15 TSS g14071.t15 34478846 34478846
chr_1 g14071 g14071.t15 isoform g14071.t15 34478860 34479589
chr_1 g14071 g14071.t15 exon g14071.t15.exon1 34478860 34479021
chr_1 g14071 g14071.t15 cds g14071.t15.CDS1 34478860 34479021
chr_1 g14071 g14071.t15 exon g14071.t15.exon2 34479211 34479589
chr_1 g14071 g14071.t15 cds g14071.t15.CDS2 34479211 34479495
chr_1 g14071 g14071.t15 TTS g14071.t15 34479591 34479591

Sequences

>g14071.t15 Gene=g14071 Length=541
ATGAAGTTTAATAGAAACGTCTCATCATCGCGTCGCAAGAGTCGTCTTCGACATTTTACA
GCTCCATCGCATATTCGTAGAAAGATAATGTCATCACCATTGAGCAAAGAACTCAGACAA
AAATATAATGTTCGCTCAATGCCAATTCGTAAAGATGATGAAGTCGTTCGTGGTCACTAT
AAAGGAAATCAAGTTGGCAAAGTAGTGCAAGTGTACAGAAAGAAATTTGTTGTGTACATT
GAACGAATCCAGCGCGAGAAGGCAAATGGAACTAATGTTTATGTTGGAATTCATCCATCA
AAACTTTTGATTGTCAAACTCAAGATGGACAAAGACCGCAAACGCATCTTGGATCGCAGA
GCAAAGGGACGTTTGGCTGCTCTTGGAAAAGATAAGGGCAAATATACAGAAGAAACAGCT
GCTGCTCCAATGGAAACTACATCCTAAATCAACAATAATAATTTCCAATTTACTGTATGC
TAAGTAAAAAGATCCATCAGAAACATCAATTTCTGAAAATGAATAAAGATGGAAATCAAA
A

>g14071.t15 Gene=g14071 Length=148
MKFNRNVSSSRRKSRLRHFTAPSHIRRKIMSSPLSKELRQKYNVRSMPIRKDDEVVRGHY
KGNQVGKVVQVYRKKFVVYIERIQREKANGTNVYVGIHPSKLLIVKLKMDKDRKRILDRR
AKGRLAALGKDKGKYTEETAAAPMETTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g14071.t15 CDD cd06089 KOW_RPL26 54 104 1.70981E-10
7 g14071.t15 Gene3D G3DSA:2.30.30.30 - 1 145 7.1E-59
3 g14071.t15 PANTHER PTHR11143 60S RIBOSOMAL PROTEIN L26 FAMILY MEMBER 1 139 7.1E-74
4 g14071.t15 PANTHER PTHR11143:SF10 60S RIBOSOMAL PROTEIN L26-LIKE 1 1 139 7.1E-74
1 g14071.t15 Pfam PF16906 Ribosomal proteins L26 eukaryotic, L24P archaeal 8 120 1.8E-39
2 g14071.t15 Pfam PF00467 KOW motif 55 81 2.3E-5
5 g14071.t15 SUPERFAMILY SSF50104 Translation proteins SH3-like domain 8 124 1.65E-31
6 g14071.t15 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 10 -
8 g14071.t15 TIGRFAM TIGR01080 rplX_A_E: ribosomal protein uL24 8 121 5.1E-43

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: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.

Raw TPM values