General information for g4717.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ubiquinone biosynthesis O-methyltransferase.
Parent gene
- The parent gene g4717 is located on chr_2: 4366506..4367762 (+ 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 | g4717 | g4717.t3 | TSS | g4717.t3 | 4366441 | 4366441 |
| chr_2 | g4717 | g4717.t3 | isoform | g4717.t3 | 4366506 | 4367762 |
| chr_2 | g4717 | g4717.t3 | exon | g4717.t3.exon1 | 4366506 | 4367762 |
| chr_2 | g4717 | g4717.t3 | cds | g4717.t3.CDS1 | 4367253 | 4367762 |
| chr_2 | g4717 | g4717.t3 | TTS | g4717.t3 | 4367934 | 4367934 |
Sequences
>g4717.t3 Gene=g4717 Length=1257
ATGTTGCAATCAGATAAAGAACTTCTTGATAGAAATATTCTTCCATCAGAACAAAAGAGT
TTTTCGCCGTTAGCAAAAGATTGGTGGAATAAGAAAAATGGGCCAGCATGTGTTATTCAT
GACATGAATGATTTTCGCATAAAGCTCATTTTTGATTATCTCATTTCAACTGGTGTTTTG
AAACCTTGGCAAAGAAATCAACCGGATGCACTTCAAGGATTGAAAATTTTAGGCAAGTAA
AAATAATTGATCATTTTAAAAAACTCTAATTTGAAAAATAATTTTTATTGTCGAATACTA
TAAAATTCAAAAAACTAGCAAGTTTATTAAAAAAAAGCTGCATATAATTTTTTAAAAAAA
AAAATTGAGTTTTGAATCATAGCAATGCGTGTATACATCTAAATAGCAAAAAATCATCTC
ATACTGATGTCATTGAAAAATACATTTTTACTTTAAAATTTGAATGGGCACTACAAAAGA
TAAATAAGTTGTGTTAAATAATACAAAATAAATTTAAATACGGCAAAATATTATGTATTG
GATTTTTCTTCTAAAGTTGTCTATAAATTTTTCTTACTCACTGCATTAAAATCAACAATA
ACATCTAATTGTTTTCATTCAATATTTTTAAGGCTTTTTACTGAATTCAAGAATTTTTTA
AGCTTTGACTATAAAAATTTATATTTTTCAGATCTTGGATGTGGTGGAGGTATTTTGACG
GAACCTCTTGCAAGACTTAAAGCACAAATGACGGGAATTGATCCAAATGAAGATCTGATT
GCAGTGGCAAAAGAGCACATTGAGCCACAAAAAGATATTAGCGATAATGTTGTTTACTTG
ACAGAAACTATTGAGGAACATTGCGAGAAATTTTCGAATTATTATGATCTTGTTATTTGC
AGTGAAGTTCTTGATCATGTTCCAGATAGAAAGTCAATTCTTGTTGCTGCTTCAAAAGTT
CTGAAAAATGGTGGAAGTATTTTTGTTTCGACTTTCAATAAGACTTTTTGGTCTTGGTTT
CTTGCAATCGTTTGTGGTGAATATATTTTGAGAGTCATACCACGTGGAAGTCATCACTAC
AACATGTTTATTTCACCTCAAGAAGTTTCTGATATTCTAAAAGAACTAAATTTTAAGACA
AAAAGTTTGAAAGGTTTTTTGTATAATTTAATTACTAGAAAGTTTTATGTTCATAATTGG
ATTGGATTCAGTTATGCATTGCATGCTGTTAAAGGAAAAGAAAATTTAATTGAATGA
>g4717.t3 Gene=g4717 Length=169
MTGIDPNEDLIAVAKEHIEPQKDISDNVVYLTETIEEHCEKFSNYYDLVICSEVLDHVPD
RKSILVAASKVLKNGGSIFVSTFNKTFWSWFLAIVCGEYILRVIPRGSHHYNMFISPQEV
SDILKELNFKTKSLKGFLYNLITRKFYVHNWIGFSYALHAVKGKENLIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4717.t3 | CDD | cd02440 | AdoMet_MTases | 2 | 83 | 5.4927E-6 |
| 5 | g4717.t3 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 1 | 163 | 8.6E-40 |
| 2 | g4717.t3 | PANTHER | PTHR43464 | METHYLTRANSFERASE | 1 | 146 | 3.8E-31 |
| 3 | g4717.t3 | PANTHER | PTHR43464:SF25 | UBIQUINONE BIOSYNTHESIS O-METHYLTRANSFERASE, MITOCHONDRIAL | 1 | 146 | 3.8E-31 |
| 1 | g4717.t3 | Pfam | PF13847 | Methyltransferase domain | 1 | 96 | 2.0E-12 |
| 8 | g4717.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 86 | - |
| 9 | g4717.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 87 | 104 | - |
| 7 | g4717.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 105 | 169 | - |
| 4 | g4717.t3 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 2 | 147 | 2.84E-27 |
| 6 | g4717.t3 | TIGRFAM | TIGR01983 | UbiG: 3-demethylubiquinone-9 3-O-methyltransferase | 2 | 152 | 3.6E-43 |
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:0008425 | 2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity | MF |
| GO:0006744 | ubiquinone biosynthetic process | BP |
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