General information for g14433.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Eukaryotic translation initiation factor 4 gamma 3.
Parent gene
- The parent gene g14433 is located on chr_4: 499943..502207 (- 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_4 | g14433 | g14433.t2 | TTS | g14433.t2 | 494741 | 494741 |
| chr_4 | g14433 | g14433.t2 | isoform | g14433.t2 | 494923 | 496091 |
| chr_4 | g14433 | g14433.t2 | exon | g14433.t2.exon1 | 494923 | 494997 |
| chr_4 | g14433 | g14433.t2 | cds | g14433.t2.CDS1 | 494924 | 494997 |
| chr_4 | g14433 | g14433.t2 | exon | g14433.t2.exon2 | 495178 | 495279 |
| chr_4 | g14433 | g14433.t2 | cds | g14433.t2.CDS2 | 495178 | 495279 |
| chr_4 | g14433 | g14433.t2 | exon | g14433.t2.exon3 | 495407 | 495641 |
| chr_4 | g14433 | g14433.t2 | cds | g14433.t2.CDS3 | 495407 | 495641 |
| chr_4 | g14433 | g14433.t2 | exon | g14433.t2.exon4 | 495705 | 495818 |
| chr_4 | g14433 | g14433.t2 | cds | g14433.t2.CDS4 | 495705 | 495806 |
| chr_4 | g14433 | g14433.t2 | exon | g14433.t2.exon5 | 495877 | 496091 |
| chr_4 | g14433 | g14433.t2 | TSS | g14433.t2 | NA | NA |
Sequences
>g14433.t2 Gene=g14433 Length=741
GCGAACTATTAATAGCAAACGTACTAACTTTCCAAGAAGTTTACCAAATCTGCCAAGCGG
AAGCGCGTAACCAAGAAAATATTTTACGTTTCATTTTTACGGCAATTGAGAAGCGACATA
GTGCAAATAAGCTTCAGCAGGTCGTTGCCGAGAGTAACTGTGATTTAGGCCAATTTGTTA
GAGATGGCAATTTTGGACGATGGTTGGAGGAAAATAAATTCACAAATATGGTGCGGCGTG
GAACACGTGGCATTGGTGATGTGATGAAACATTTAGAAGAAATGCTGCAACAAAAAACCA
GCAATGACAATATTATGGATTACATTAAATCAACAAATGTTGCAAATGATCCATCTTTTA
TTCGTCAACTAACACTTGTTGTTATGACATATTGCTGCGACGAATATGCAGCTGGACAAC
CACAGGCCTCATACAAACTTAACAATGCAAAATTGGAACAGCTATCATTAATTTTACAAC
GCTATATTGATACTGAAATAGAACGCGAGCTTCAGTGTATTTTTGCTTTACAGCATTTTG
CTTTTATCAGGGAATATCCACCAGGTCTTCTTAATTCAATCTTTGAAGTTTTATATGACA
ATGACGTACTGTCTGTAGAAGCATTTGAAAAATGGAAAAATTCAGAAGACGCTTGTGAAG
GAAAAGGTGTTGCAGTTTGCAGTACACGACAATTCTTCACAAAACTCGCCGAAGACGAGG
ATGATGATGATGATACTGGAA
>g14433.t2 Gene=g14433 Length=171
MVRRGTRGIGDVMKHLEEMLQQKTSNDNIMDYIKSTNVANDPSFIRQLTLVVMTYCCDEY
AAGQPQASYKLNNAKLEQLSLILQRYIDTEIERELQCIFALQHFAFIREYPPGLLNSIFE
VLYDNDVLSVEAFEKWKNSEDACEGKGVAVCSTRQFFTKLAEDEDDDDDTG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g14433.t2 | CDD | cd11559 | W2_eIF4G1_like | 12 | 141 | 0.000 |
| 6 | g14433.t2 | Gene3D | G3DSA:1.25.40.180 | - | 11 | 162 | 0.000 |
| 2 | g14433.t2 | PANTHER | PTHR23253:SF23 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA 3 | 43 | 165 | 0.000 |
| 3 | g14433.t2 | PANTHER | PTHR23253 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA | 43 | 165 | 0.000 |
| 1 | g14433.t2 | Pfam | PF02020 | eIF4-gamma/eIF5/eIF2-epsilon | 94 | 169 | 0.000 |
| 7 | g14433.t2 | ProSiteProfiles | PS51363 | W2 domain profile. | 1 | 170 | 15.596 |
| 5 | g14433.t2 | SMART | SM00515 | 542_3 | 81 | 166 | 0.000 |
| 4 | g14433.t2 | SUPERFAMILY | SSF48371 | ARM repeat | 11 | 136 | 0.000 |
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:0003743 | translation initiation factor activity | MF |
| GO:0005515 | protein binding | MF |
| GO:0000339 | RNA cap 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.
