General information for g7741.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Eukaryotic translation initiation factor 4E1.
Parent gene
- The parent gene g7741 is located on chr_2: 25630788..25637153 (+ strand)
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.t12 | TSS | g7741.t12 | 25629566 | 25629566 |
| chr_2 | g7741 | g7741.t12 | isoform | g7741.t12 | 25629631 | 25637153 |
| chr_2 | g7741 | g7741.t12 | exon | g7741.t12.exon1 | 25629631 | 25629651 |
| chr_2 | g7741 | g7741.t12 | cds | g7741.t12.CDS1 | 25629631 | 25629651 |
| chr_2 | g7741 | g7741.t12 | exon | g7741.t12.exon2 | 25630103 | 25630544 |
| chr_2 | g7741 | g7741.t12 | cds | g7741.t12.CDS2 | 25630103 | 25630544 |
| chr_2 | g7741 | g7741.t12 | exon | g7741.t12.exon3 | 25630625 | 25631258 |
| chr_2 | g7741 | g7741.t12 | cds | g7741.t12.CDS3 | 25630625 | 25630788 |
| chr_2 | g7741 | g7741.t12 | TTS | g7741.t12 | 25631256 | 25631256 |
| chr_2 | g7741 | g7741.t12 | exon | g7741.t12.exon4 | 25637139 | 25637153 |
Sequences
>g7741.t12 Gene=g7741 Length=1112
ATGGCATCTGCAGAGATACAACAAAATTCAGCTGATCAAAATCAAAATAAGCAGGACTTA
GCTCCATCGCAAGCCGAATTAGTGAAGCATCCGTTACAAAACTCGTGGACTCTTTGGTAT
TATGAACCAGATCGTAATAAGTCGTGGGAAGATAATCAAAATCAAGTTTCAACGTTCCAG
ACTGTTGAAGATTTCTGGAGTTTGTTTACTCACATCAAGCAACCGAGTGAAGTTAAAATA
GGCAGCGATTACTCTCTTTTCAAAACAGACATTCGTCCAATGTGGGAAGATAAGGCTAAC
AAAAATGGAGGTCGTTGGATGTTGACATTAAATCGAAATCAACGACCAGAATTAGATCGC
TACTGGATCGACACTGTTTTGTGTTTAATTGGTGAGGCATTTGATAGCTTCGAGGATATT
TGTGGGGCTGTTGTTAACATTCGTTCAAAAGGAGATAAAATAGGTGTCTGGACGAGTAAC
AGCAATAATAAAGAAGCAGTTATGGAAATTGGTAGGAAATTGAAAGAAGGACTTAATTTG
CCAGATCGTATCAAAATTCAATATCAGACACATTCGGATTCAATGGTTAAGAATTCATCA
AACGTAAAGTCTCTCTATGAGATCTAAACAAATTTGGAGGATAATCAATATTTGATGAAA
GATAATTTATTTGAATTATGATTCTTTCTATACTTTTTTTTGAGCAGAATTTACAAGTTT
ACAATATTTCATATAATTGTTTTGCAATCTATGTTTACTGCTTATTACCATTTGAAATGA
GAAAACTTTTAGCCACATCATCATTATAGATTGATTCTTAATTTTTTTCCTTTAATTTTT
CTTATGTATGTCAACCTTTTTTATTTTGTTGAATTGAATTTATTGAAGAAACTGAAATAT
GTCTCATCTTATCTCTCGACTATAAAAAATATTATGAATGAATAAAACCGCTTAGATGTT
ATTTCATATTTCATTATTTTAAGATTATTAGTTACAAATAATGTGTATGATGTAATTTTA
ATCATAACATTTTGCAAGTATGTAAAAAATACTTTAAACTTAAACAATAAAAAACATGAG
AAATTTATAAGAAACAGAAAATTTCATGGCAT
>g7741.t12 Gene=g7741 Length=208
MASAEIQQNSADQNQNKQDLAPSQAELVKHPLQNSWTLWYYEPDRNKSWEDNQNQVSTFQ
TVEDFWSLFTHIKQPSEVKIGSDYSLFKTDIRPMWEDKANKNGGRWMLTLNRNQRPELDR
YWIDTVLCLIGEAFDSFEDICGAVVNIRSKGDKIGVWTSNSNNKEAVMEIGRKLKEGLNL
PDRIKIQYQTHSDSMVKNSSNVKSLYEI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g7741.t12 | Gene3D | G3DSA:3.30.760.10 | RNA Cap | 25 | 208 | 5.9E-74 |
| 6 | g7741.t12 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 2 | g7741.t12 | PANTHER | PTHR11960:SF3 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4E TYPE 1B | 7 | 204 | 7.7E-74 |
| 3 | g7741.t12 | PANTHER | PTHR11960 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4E RELATED | 7 | 204 | 7.7E-74 |
| 1 | g7741.t12 | Pfam | PF01652 | Eukaryotic initiation factor 4E | 31 | 188 | 6.2E-57 |
| 5 | g7741.t12 | ProSitePatterns | PS00813 | Eukaryotic initiation factor 4E signature. | 83 | 106 | - |
| 4 | g7741.t12 | SUPERFAMILY | SSF55418 | eIF4e-like | 9 | 203 | 7.46E-71 |
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 transcript has been annotated with K03259 (translation initiation factor 4E)
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.
