General information for g293.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Translational regulator orb2.
Parent gene
- The parent gene g293 is located on chr_3: 2550085..2553267 (- 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_3 | g293 | g293.t2 | isoform | g293.t2 | 2549514 | 2551091 |
| chr_3 | g293 | g293.t2 | exon | g293.t2.exon1 | 2549514 | 2550201 |
| chr_3 | g293 | g293.t2 | TTS | g293.t2 | 2549523 | 2549523 |
| chr_3 | g293 | g293.t2 | cds | g293.t2.CDS1 | 2550085 | 2550201 |
| chr_3 | g293 | g293.t2 | exon | g293.t2.exon2 | 2550435 | 2550641 |
| chr_3 | g293 | g293.t2 | cds | g293.t2.CDS2 | 2550435 | 2550641 |
| chr_3 | g293 | g293.t2 | exon | g293.t2.exon3 | 2550729 | 2550814 |
| chr_3 | g293 | g293.t2 | cds | g293.t2.CDS3 | 2550729 | 2550814 |
| chr_3 | g293 | g293.t2 | exon | g293.t2.exon4 | 2550881 | 2551091 |
| chr_3 | g293 | g293.t2 | cds | g293.t2.CDS4 | 2550881 | 2550941 |
| chr_3 | g293 | g293.t2 | TSS | g293.t2 | NA | NA |
Sequences
>g293.t2 Gene=g293 Length=1192
GATGAAAGTTCTGTCCAAACTTTGATTGAAAATTGCATTGTGGAAGAAGACAAATTATAT
ATTTGTGTCTCATCGCCAACCATCAAGAATAAACCCGTTCAGATTCGTCCATGGCGCCTT
TCAGATGCTGATTTTGTACTAAATGGTTCAATGCCATTAGATCCACGTAAAACTGTTTTT
GTGGGTGGTGTTCCACGACCATTGAAAGCATTGGAACTAGCAATGATTATGGATCGTCTA
TATGGTGGAGTTTGTTATGCTGGAATTGACACTGATCCCGAATTGAAATATCCAAAGGGC
GCTGGTCGTGTAGCATTTTCAAATCAACAAAGCTATATTGCAGCAATTTCCGCTCGTTTC
GTTCAATTGCAACACAATGACATTGACAAACGCGTTGAAGTGAAACCGTACGTTCTCGAC
GATCAAATGTGCGATGAATGTCAAGGGCAAAGATGCAGCGGCAAATTTGCTCCATTCTTC
TGCGCCAATGTTACTTGCTTGCAGTACTACTGTGAGCATTGCTGGGCATCTATTCATTCA
CGTCCTGGACGCGAATATCACAAGCCGTTGGTGAAGGAAGGCGCTGATCGTCCTCGTGCT
GTTCCATTTCGTTGGTGTTAAAAGCCGTGACTCAATTTTCCAAAAGCAAAAGAATGTTAC
AACTAAAGAAAGATGTTTCTAGTCCTACACAAAATGGACTGCCGCAATGATGTTGATGAA
TCATCAAAAACATTTAAAGATTACTAGTTAATTACTTTATTTTCCCTAAAAAAACATTTC
CTCCTCAATCTTAGAAAAAACGAAAAAAATGAAGGACACACAAGAGAAAATTTATTTTTA
AAAAAAAAATCACATAAAAAATTATAAAAAGATTTATTTCAATGGTCGCAACAGCAGCAG
CGCTTGATCAAAACATTAAAATATGGTCGTTAAATTGAGGAAACAAAAAAAAAACATATA
AAAAAGATACCTTCATTGAGTTTAAAGCTGTTTTTGTAAAACAAGATTTTTTTATTAGAC
GAATGAGAGAGACAGAGATAGATTTTTATCTCTAGTTTCTTTTACTTTCTCTCTTAGTCT
CAATATTAACTTTTTTTATGTAGAACTCTTTCTTATTTGTATAACAAAATATCGATAAAT
ATAATAAAAGCAACTTTTTGTGAACGATCGATGTAAAAAATTATAAACAAAA
>g293.t2 Gene=g293 Length=156
MPLDPRKTVFVGGVPRPLKALELAMIMDRLYGGVCYAGIDTDPELKYPKGAGRVAFSNQQ
SYIAAISARFVQLQHNDIDKRVEVKPYVLDDQMCDECQGQRCSGKFAPFFCANVTCLQYY
CEHCWASIHSRPGREYHKPLVKEGADRPRAVPFRWC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g293.t2 | CDD | cd12726 | RRM2_CPEB2_like | 7 | 87 | 0.0000000 |
| 8 | g293.t2 | CDD | cd19757 | Bbox1 | 93 | 131 | 0.0003570 |
| 5 | g293.t2 | Gene3D | G3DSA:3.30.70.330 | - | 1 | 84 | 0.0000000 |
| 6 | g293.t2 | Gene3D | G3DSA:3.30.40.130 | - | 85 | 150 | 0.0000000 |
| 2 | g293.t2 | PANTHER | PTHR12566 | CYTOPLASMIC POLYADENYLATION ELEMENT BINDING PROTEIN CPEB | 2 | 155 | 0.0000000 |
| 3 | g293.t2 | PANTHER | PTHR12566:SF2 | CYTOPLASMIC POLYADENYLATION ELEMENT-BINDING PROTEIN 4 | 2 | 155 | 0.0000000 |
| 1 | g293.t2 | Pfam | PF16366 | Cytoplasmic polyadenylation element-binding protein ZZ domain | 80 | 142 | 0.0000000 |
| 7 | g293.t2 | ProSiteProfiles | PS50102 | Eukaryotic RNA Recognition Motif (RRM) profile. | 7 | 85 | 9.1490000 |
| 4 | g293.t2 | SUPERFAMILY | SSF54928 | RNA-binding domain, RBD | 5 | 68 | 0.0000001 |
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:0045182 | translation regulator activity | MF |
| GO:0006417 | regulation of translation | BP |
| GO:0003730 | mRNA 3’-UTR binding | MF |
| GO:0003676 | nucleic acid 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