Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Eukaryotic translation initiation factor 4E1.

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_2 g7741 g7741.t6 TSS g7741.t6 25629566 25629566
chr_2 g7741 g7741.t6 isoform g7741.t6 25629631 25631269
chr_2 g7741 g7741.t6 exon g7741.t6.exon1 25629631 25629651
chr_2 g7741 g7741.t6 cds g7741.t6.CDS1 25629631 25629651
chr_2 g7741 g7741.t6 exon g7741.t6.exon2 25630103 25630461
chr_2 g7741 g7741.t6 cds g7741.t6.CDS2 25630103 25630461
chr_2 g7741 g7741.t6 exon g7741.t6.exon3 25630545 25631269
chr_2 g7741 g7741.t6 cds g7741.t6.CDS3 25630545 25630548
chr_2 g7741 g7741.t6 TTS g7741.t6 25631256 25631256

Sequences

>g7741.t6 Gene=g7741 Length=1105
ATGGCATCTGCAGAGATACAACAAAATTCAGCTGATCAAAATCAAAATAAGCAGGACTTA
GCTCCATCGCAAGCCGAATTAGTGAAGCATCCGTTACAAAACTCGTGGACTCTTTGGTAT
TATGAACCAGATCGTAATAAGTCGTGGGAAGATAATCAAAATCAAGTTTCAACGTTCCAG
ACTGTTGAAGATTTCTGGAGTTTGTTTACTCACATCAAGCAACCGAGTGAAGTTAAAATA
GGCAGCGATTACTCTCTTTTCAAAACAGACATTCGTCCAATGTGGGAAGATAAGGCTAAC
AAAAATGGAGGTCGTTGGATGTTGACATTAAATCGAAATCAACGACCAGAATTAGATCGC
TACTGGATCGACACTGTTTTGTAACATATTTGTATAAACGATAAAAGATATAGAAGTTAG
TAAACAAATGACTCATGGTCTGTATTTGCTTATTTTTTAGGTGTCTGGACGAGTAACAGC
AATAATAAAGAAGCAGTTATGGAAATTGGTAGGAAATTGAAAGAAGGACTTAATTTGCCA
GATCGTATCAAAATTCAATATCAGACACATTCGGATTCAATGGTTAAGAATTCATCAAAC
GTAAAGTCTCTCTATGAGATCTAAACAAATTTGGAGGATAATCAATATTTGATGAAAGAT
AATTTATTTGAATTATGATTCTTTCTATACTTTTTTTTGAGCAGAATTTACAAGTTTACA
ATATTTCATATAATTGTTTTGCAATCTATGTTTACTGCTTATTACCATTTGAAATGAGAA
AACTTTTAGCCACATCATCATTATAGATTGATTCTTAATTTTTTTCCTTTAATTTTTCTT
ATGTATGTCAACCTTTTTTATTTTGTTGAATTGAATTTATTGAAGAAACTGAAATATGTC
TCATCTTATCTCTCGACTATAAAAAATATTATGAATGAATAAAACCGCTTAGATGTTATT
TCATATTTCATTATTTTAAGATTATTAGTTACAAATAATGTGTATGATGTAATTTTAATC
ATAACATTTTGCAAGTATGTAAAAAATACTTTAAACTTAAACAATAAAAAACATGAGAAA
TTTATAAGAAACAGATGATCTCACT

>g7741.t6 Gene=g7741 Length=127
MASAEIQQNSADQNQNKQDLAPSQAELVKHPLQNSWTLWYYEPDRNKSWEDNQNQVSTFQ
TVEDFWSLFTHIKQPSEVKIGSDYSLFKTDIRPMWEDKANKNGGRWMLTLNRNQRPELDR
YWIDTVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g7741.t6 Gene3D G3DSA:3.30.760.10 RNA Cap 2 127 2.0E-44
6 g7741.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 26 -
7 g7741.t6 MobiDBLite mobidb-lite consensus disorder prediction 1 22 -
2 g7741.t6 PANTHER PTHR11960:SF29 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E FAMILY MEMBER 1C 9 127 2.7E-39
3 g7741.t6 PANTHER PTHR11960 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E RELATED 9 127 2.7E-39
1 g7741.t6 Pfam PF01652 Eukaryotic initiation factor 4E 31 127 4.8E-35
5 g7741.t6 ProSitePatterns PS00813 Eukaryotic initiation factor 4E signature. 83 106 -
4 g7741.t6 SUPERFAMILY SSF55418 eIF4e-like 9 127 2.09E-42

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
GO:0005737 cytoplasm CC

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