General information for g11510.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
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.t2 | isoform | g11510.t2 | 16711012 | 16712275 |
| chr_1 | g11510 | g11510.t2 | exon | g11510.t2.exon1 | 16711012 | 16711856 |
| chr_1 | g11510 | g11510.t2 | cds | g11510.t2.CDS1 | 16711765 | 16711856 |
| chr_1 | g11510 | g11510.t2 | exon | g11510.t2.exon2 | 16711945 | 16712275 |
| chr_1 | g11510 | g11510.t2 | cds | g11510.t2.CDS2 | 16711945 | 16712233 |
| chr_1 | g11510 | g11510.t2 | TSS | g11510.t2 | 16712805 | 16712805 |
| chr_1 | g11510 | g11510.t2 | TTS | g11510.t2 | NA | NA |
Sequences
>g11510.t2 Gene=g11510 Length=1176
GAAAATATAAAAGAACATGATAATAAATTTATACGTGTTTTGATGGAGCTTTTATTGAAA
AATTGCATAGAAAAAATGCATGATGGATCATATCGATTAGAACGTGAACGATTGGACTTT
TTCGCACCATTACTCACACAATTTGTGGAAAAAAGCAAGGAAAAGCAAATTCAATGCTTA
CAAGTTATTCACCGTTATATGAATGAACTCGAGCATCCTCAATCATGTTTAAATGATATT
TTAACATGCTTATATGAAAATTTTGCTTTATCAAAGAGTGCATTTTTCAAGTGGCACGAT
GATGACGATCCACATGAGCAAGAAGGAAAAGGAGTTGCATTGAAAAGCATTCATCCGTTT
ATTCAATTTTTAAAAACTGAAAAGGATGAGAATGATGATGACTCTACAGGCGACGAAAAT
TAATTTTCATTTTATCTTTATATCGTACATAATAACATGCTTAAACATAACTTAGAAGGA
GAAGAAAAGCAAGGGAATAGAAGAAAACATAATCAAGTGCGAGATTATTTGTATATCAAT
CAAATCGTTAATAATTTATGAATTGACATGATATTTTTTTTCAATAGTAACTTTCATTTT
TATACTCTCTTTTTTCATCGATGTCCTCCCTTTTAATGCATTCTCTTTTTTTAAATTTGA
AATTATAAATATTTGATATTTAACGAAAAATGAATCAAGTGACCTTATTTTAAGATGAGG
ATAATGTTAAAATTTTCTTTTTACACACATCCTTATGTATATTTGAGGAAAGGAATAATT
AAAAGGAAATAGTTAGCTCATTTTTTTCTCCTGTTTAATGAACTTATCACGTGTAATATC
TATCATATTCATATTTTTTTTTGTTAATTGCTTCACTAATCGAAAAGAATAATCATATAA
AAATAGGTTTTTTTGTTTTTCTTTGGGGACTGATATATATGTTATTATATTATTATTATA
CTATTATATTTTGTTTTCAATTTTTAATATTATTATTTTTTTTTTATAAAACAATTCTTC
AATATATCAAAAGAGTAAAATAAAGGAGAAAAATTGAACAGTACATACTATTTAAAGGAT
TTTTTTCAAATTATTAATCTAGCTTTTTTGTAAAATTTAATATATAAAAAAGAGAAATAT
ATAATACTTTAAAACACCAATGAAGGTAAAATTATT
>g11510.t2 Gene=g11510 Length=126
MELLLKNCIEKMHDGSYRLERERLDFFAPLLTQFVEKSKEKQIQCLQVIHRYMNELEHPQ
SCLNDILTCLYENFALSKSAFFKWHDDDDPHEQEGKGVALKSIHPFIQFLKTEKDENDDD
STGDEN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g11510.t2 | Gene3D | G3DSA:1.25.40.180 | - | 1 | 112 | 0.0 |
| 2 | g11510.t2 | PANTHER | PTHR23253:SF23 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA 3 | 28 | 112 | 0.0 |
| 3 | g11510.t2 | PANTHER | PTHR23253 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4 GAMMA | 28 | 112 | 0.0 |
| 1 | g11510.t2 | Pfam | PF02020 | eIF4-gamma/eIF5/eIF2-epsilon | 42 | 120 | 0.0 |
| 7 | g11510.t2 | ProSiteProfiles | PS51363 | W2 domain profile. | 1 | 120 | 14.5 |
| 5 | g11510.t2 | SMART | SM00515 | 542_3 | 29 | 116 | 0.0 |
| 4 | g11510.t2 | SUPERFAMILY | SSF48371 | ARM repeat | 9 | 112 | 0.0 |
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: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.
