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.t4 TSS g7741.t4 25629566 25629566
chr_2 g7741 g7741.t4 isoform g7741.t4 25629631 25631258
chr_2 g7741 g7741.t4 exon g7741.t4.exon1 25629631 25630544
chr_2 g7741 g7741.t4 cds g7741.t4.CDS1 25630361 25630544
chr_2 g7741 g7741.t4 exon g7741.t4.exon2 25630625 25631258
chr_2 g7741 g7741.t4 cds g7741.t4.CDS2 25630625 25630788
chr_2 g7741 g7741.t4 TTS g7741.t4 25631256 25631256

Sequences

>g7741.t4 Gene=g7741 Length=1548
ATGGCATCTGCAGAGATACAAGTAAGTATTATTTATCATTAAAATATCAATAAGTAAATT
GGCAATTAGTTTCATAAAAGTTAAACATCAAGAATCAGTGTTGAAGTGAAAAATTTCAAA
TTTAAATGAAATTATTTTATCAGCCTTCTTATTCCATGCTCTAATTTTTTATGTCAATGA
AATCTTTCTAATTAGTCCTATTTTTGTTGTTTTTGTTTTAATTGCGACTGACTTTGAAAA
TGGAAAACAATTTCTTAGTAGGCATATTTAAATTTTTCAACTTTAATTCTTGAAAAGAAA
TTTCTACATTTTCTCGAATCATAATTTGAAATTTACATACAAAATTAAATTAAAACCTTT
CATACGTTTACAAAATTGACATAAAAATGAATAAATTGACTTTTCAAAATGTAGTAAGGA
TGAAATTTTATAGTAATTAAGATCCAAAGAATAATTTGAATTTTTTTTACAGCAAAATTC
AGCTGATCAAAATCAAAATAAGCAGGACTTAGCTCCATCGCAAGCCGAATTAGTGAAGCA
TCCGTTACAAAACTCGTGGACTCTTTGGTATTATGAACCAGATCGTAATAAGTCGTGGGA
AGATAATCAAAATCAAGTTTCAACGTTCCAGACTGTTGAAGATTTCTGGAGTTTGTTTAC
TCACATCAAGCAACCGAGTGAAGTTAAAATAGGCAGCGATTACTCTCTTTTCAAAACAGA
CATTCGTCCAATGTGGGAAGATAAGGCTAACAAAAATGGAGGTCGTTGGATGTTGACATT
AAATCGAAATCAACGACCAGAATTAGATCGCTACTGGATCGACACTGTTTTGTGTTTAAT
TGGTGAGGCATTTGATAGCTTCGAGGATATTTGTGGGGCTGTTGTTAACATTCGTTCAAA
AGGAGATAAAATAGGTGTCTGGACGAGTAACAGCAATAATAAAGAAGCAGTTATGGAAAT
TGGTAGGAAATTGAAAGAAGGACTTAATTTGCCAGATCGTATCAAAATTCAATATCAGAC
ACATTCGGATTCAATGGTTAAGAATTCATCAAACGTAAAGTCTCTCTATGAGATCTAAAC
AAATTTGGAGGATAATCAATATTTGATGAAAGATAATTTATTTGAATTATGATTCTTTCT
ATACTTTTTTTTGAGCAGAATTTACAAGTTTACAATATTTCATATAATTGTTTTGCAATC
TATGTTTACTGCTTATTACCATTTGAAATGAGAAAACTTTTAGCCACATCATCATTATAG
ATTGATTCTTAATTTTTTTCCTTTAATTTTTCTTATGTATGTCAACCTTTTTTATTTTGT
TGAATTGAATTTATTGAAGAAACTGAAATATGTCTCATCTTATCTCTCGACTATAAAAAA
TATTATGAATGAATAAAACCGCTTAGATGTTATTTCATATTTCATTATTTTAAGATTATT
AGTTACAAATAATGTGTATGATGTAATTTTAATCATAACATTTTGCAAGTATGTAAAAAA
TACTTTAAACTTAAACAATAAAAAACATGAGAAATTTATAAGAAACAG

>g7741.t4 Gene=g7741 Length=115
MWEDKANKNGGRWMLTLNRNQRPELDRYWIDTVLCLIGEAFDSFEDICGAVVNIRSKGDK
IGVWTSNSNNKEAVMEIGRKLKEGLNLPDRIKIQYQTHSDSMVKNSSNVKSLYEI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g7741.t4 Gene3D G3DSA:3.30.760.10 RNA Cap 1 115 0
2 g7741.t4 PANTHER PTHR11960:SF3 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E TYPE 1B 1 111 0
3 g7741.t4 PANTHER PTHR11960 EUKARYOTIC TRANSLATION INITIATION FACTOR 4E RELATED 1 111 0
1 g7741.t4 Pfam PF01652 Eukaryotic initiation factor 4E 1 95 0
4 g7741.t4 SUPERFAMILY SSF55418 eIF4e-like 1 110 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

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