Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 60S ribosomal protein L27a.

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 g10569 g10569.t7 TTS g10569.t7 10486114 10486114
chr_1 g10569 g10569.t7 isoform g10569.t7 10486175 10487149
chr_1 g10569 g10569.t7 exon g10569.t7.exon1 10486175 10486303
chr_1 g10569 g10569.t7 cds g10569.t7.CDS1 10486175 10486303
chr_1 g10569 g10569.t7 exon g10569.t7.exon2 10486505 10487149
chr_1 g10569 g10569.t7 cds g10569.t7.CDS2 10486505 10486708
chr_1 g10569 g10569.t7 TSS g10569.t7 10487169 10487169

Sequences

>g10569.t7 Gene=g10569 Length=774
ATGGTTGTGAGTAAAATTTTTAATTTTAATAAAATTAAATAGTATCAATGACTTTTTTAA
GATAAATAGTAATTTATTCTAATTGCCATATTATGAATTACTATTAGCATATGAAGAATT
TTAGTTAGACTTTGATAAAACTATGTAAAACTCAATGCAAAAATGTTGAAATTTTGTATT
GATCACATAAAAAATGATGTCAATTTGAGTAAATTTTTTCTTTACTTCATTTCAGAGTCT
TATGAAAAGAAAGAAGACCCGAAAGCTTCGTGGTCATGTCAGCCATGGTCATGGTCGTAT
CGGTATGTATTTATTTGTATGCATAAGAGATTGATTTAAATTAATTTTTATATTAATGAG
GTTATGTTGATTTTAATCATTTCATTTATTATTTAAGGCAAACACAGAAAACATCCTGGT
GGTCGCGGTAATGCTGGTGGTATGCACCATCACAGAATAAATTACGATAAATACCATCCT
GGATATTTTGGAAAAGTTGGTATGCGCAACTTCCATTTGAATCGTAATCACAGCTTCTGT
CCAACAATTAATCTCGATAAACTTTGGTCATTAATTGGACAAGAAAATTACGAGAAAGCA
AAGAAAGAAGGCGATAAAGTTCCAGTTATCGATATCGTACAATTTGGATACTTTAAGCTA
CTTGGACATGGACATTTGCCAAAACAACCAATAATTGTGAAAGCAAAATATTTTTCACAG
AAAGCAGAAAAGAAAATCAAGGCTGCTGGTGGCGCATGCATCCTAAGAGCATAA

>g10569.t7 Gene=g10569 Length=110
MHHHRINYDKYHPGYFGKVGMRNFHLNRNHSFCPTINLDKLWSLIGQENYEKAKKEGDKV
PVIDIVQFGYFKLLGHGHLPKQPIIVKAKYFSQKAEKKIKAAGGACILRA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g10569.t7 Gene3D G3DSA:3.100.10.10 - 21 110 2.4E-40
2 g10569.t7 PANTHER PTHR11721 60S RIBOSOMAL PROTEIN L27A 1 109 2.3E-43
3 g10569.t7 PANTHER PTHR11721:SF13 60S RIBOSOMAL PROTEIN L27A 1 109 2.3E-43
1 g10569.t7 Pfam PF00828 Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A 3 107 8.5E-19
5 g10569.t7 ProSitePatterns PS00475 Ribosomal protein L15 signature. 72 103 -
4 g10569.t7 SUPERFAMILY SSF52080 Ribosomal proteins L15p and L18e 2 108 3.53E-30

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