General information for g11510.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Eukaryotic translation initiation factor 4 gamma 1.
Parent gene
- The parent gene g11510 is located on chr_1: 16715131..16722700 (- 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_1 | g11510 | g11510.t4 | isoform | g11510.t4 | 16713672 | 16714384 |
| chr_1 | g11510 | g11510.t4 | exon | g11510.t4.exon1 | 16713672 | 16714384 |
| chr_1 | g11510 | g11510.t4 | cds | g11510.t4.CDS1 | 16713674 | 16714114 |
| chr_1 | g11510 | g11510.t4 | TSS | g11510.t4 | NA | NA |
| chr_1 | g11510 | g11510.t4 | TTS | g11510.t4 | NA | NA |
Sequences
>g11510.t4 Gene=g11510 Length=713
AAAGCTATCACAGAACCGAATTATGCACCAAGTTATGCTCTTCTTTGTAAAGAAGTTTCT
GATGTTTTTATTGTGCCATTAGACCCGACTAATGCTCAACAACAAAATGCCGTGTTTAAA
AAGCGACTCATCACACAATGTCAACGAGAATTTGAAAAGCATCGCGACAATGAGCTAATC
AAAAATACAGCTGAACGACTGAAAAAAATTGAAGCAGAAGAAGATCCAGTAAAAAGAGAA
GAACTAAAAAATGATTTCGAGTATGAGAGCATGAAAGTCAGAAAACGTGCTGTAGGAACT
GTACATTTCATAGGCGAATTGTATAAAATTGAAATGCTTACTTCGAAAATCATGCGGTCA
TGCATTACACATTTACTTGATCCTTCCATGTGTAGTGAAGAAACTCTTGAGTGTCTATGC
AAATTACTAGAAACAATTGGAAAAAGATTAGAAAAAACCGACAAGAACAGAATTGACCTC
ACAGATTATTTTCAAACTCTCGAGAAACTTGCTGATAAAAAGAACCCAAGTGGAATAAGT
GCAAGAATAAGGTTTATGATACAGGATGTTATAGAATTGAGGATGAATAATTGGACACCA
CGCAAACCACGCCAAGGTAATAAACCTCTTACAATGGATGAAATCAAACAACAAGTTATT
ATGGAGCAAGCAATAAAAGAAATGGACAATAGAGAAGCATTTCGTGAACAGGG
>g11510.t4 Gene=g11510 Length=147
MKVRKRAVGTVHFIGELYKIEMLTSKIMRSCITHLLDPSMCSEETLECLCKLLETIGKRL
EKTDKNRIDLTDYFQTLEKLADKKNPSGISARIRFMIQDVIELRMNNWTPRKPRQGNKPL
TMDEIKQQVIMEQAIKEMDNREAFREQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11510.t4 | Gene3D | G3DSA:1.25.40.180 | - | 1 | 122 | 0 |
| 2 | g11510.t4 | PANTHER | PTHR23253:SF63 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4G1, ISOFORM B-RELATED | 1 | 136 | 0 |
| 3 | g11510.t4 | PANTHER | PTHR23253 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA | 1 | 136 | 0 |
| 1 | g11510.t4 | Pfam | PF02854 | MIF4G domain | 4 | 107 | 0 |
| 4 | g11510.t4 | SUPERFAMILY | SSF48371 | ARM repeat | 2 | 109 | 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:0003723 | RNA binding | MF |
| GO:0005515 | protein 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.
