Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Eukaryotic translation initiation factor 4E type 2.

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_3 g2574 g2574.t5 TSS g2574.t5 18816527 18816527
chr_3 g2574 g2574.t5 isoform g2574.t5 18816651 18817577
chr_3 g2574 g2574.t5 exon g2574.t5.exon1 18816651 18816670
chr_3 g2574 g2574.t5 cds g2574.t5.CDS1 18816651 18816670
chr_3 g2574 g2574.t5 exon g2574.t5.exon2 18816768 18816873
chr_3 g2574 g2574.t5 cds g2574.t5.CDS2 18816768 18816873
chr_3 g2574 g2574.t5 exon g2574.t5.exon3 18816978 18817316
chr_3 g2574 g2574.t5 cds g2574.t5.CDS3 18816978 18817316
chr_3 g2574 g2574.t5 exon g2574.t5.exon4 18817529 18817577
chr_3 g2574 g2574.t5 cds g2574.t5.CDS4 18817529 18817537
chr_3 g2574 g2574.t5 TTS g2574.t5 18817795 18817795

Sequences

>g2574.t5 Gene=g2574 Length=514
ATGTCCACAAAGTACGATGCATTGAAACCATATGAAAGTGACTCGGACGATGAGGACTAC
AATATTGACTTTGATGAGTCTAAATTGCCTCCAATTGAGATTCCTCCAGGAGATCACAAA
TTACAACATTGCTATAATCTCTGGTATGCGAGGAAAGGTAGCCATCGGGCATCTGAATAT
TCTAAATCACTTCATTTTATTGGAAGATGTGCAACTGTTGAGCAATGGTGGGCTCTATAC
TGCCATTTATTACGACCAACAGAATTGAAGCCTTATCGAAAACTGCATCTTTTCAAAGCC
GGGATTAAACCAATGTGGGAAGATCCGGAAAATATCAAAGGAGGAAAATGGATTTTACGT
TTGAGAAAAAATAAAGTTAACCGAGCTTGGGAAAATGTCTGCATGGCGATGTTAGGTGAA
CAATTTCTTGTTGGGCCTGAAATTTGCGGAATTGTACTATCAACTGGCAACTAAAGTATT
GATGAGCAAATCTCAAAATCCTAAGGAGGAATAA

>g2574.t5 Gene=g2574 Length=157
MSTKYDALKPYESDSDDEDYNIDFDESKLPPIEIPPGDHKLQHCYNLWYARKGSHRASEY
SKSLHFIGRCATVEQWWALYCHLLRPTELKPYRKLHLFKAGIKPMWEDPENIKGGKWILR
LRKNKVNRAWENVCMAMLGEQFLVGPEICGIVLSTGN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g2574.t5 Gene3D G3DSA:3.30.760.10 RNA Cap 12 156 0
2 g2574.t5 PANTHER PTHR11960 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E RELATED 23 155 0
3 g2574.t5 PANTHER PTHR11960:SF18 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E HOMOLOGOUS PROTEIN, ISOFORM B 23 155 0
1 g2574.t5 Pfam PF01652 Eukaryotic initiation factor 4E 40 155 0
4 g2574.t5 SUPERFAMILY SSF55418 eIF4e-like 13 154 0

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:0006413 translational initiation BP
GO:0003743 translation initiation factor activity MF
GO:0003723 RNA binding 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