General information for g4717.t1
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.t1 | TSS | g4717.t1 | 4366441 | 4366441 |
| chr_2 | g4717 | g4717.t1 | isoform | g4717.t1 | 4366506 | 4367762 |
| chr_2 | g4717 | g4717.t1 | exon | g4717.t1.exon1 | 4366506 | 4366737 |
| chr_2 | g4717 | g4717.t1 | cds | g4717.t1.CDS1 | 4366506 | 4366737 |
| chr_2 | g4717 | g4717.t1 | exon | g4717.t1.exon2 | 4367197 | 4367762 |
| chr_2 | g4717 | g4717.t1 | cds | g4717.t1.CDS2 | 4367197 | 4367762 |
| chr_2 | g4717 | g4717.t1 | TTS | g4717.t1 | 4367934 | 4367934 |
Sequences
>g4717.t1 Gene=g4717 Length=798
ATGTTGCAATCAGATAAAGAACTTCTTGATAGAAATATTCTTCCATCAGAACAAAAGAGT
TTTTCGCCGTTAGCAAAAGATTGGTGGAATAAGAAAAATGGGCCAGCATGTGTTATTCAT
GACATGAATGATTTTCGCATAAAGCTCATTTTTGATTATCTCATTTCAACTGGTGTTTTG
AAACCTTGGCAAAGAAATCAACCGGATGCACTTCAAGGATTGAAAATTTTAGATCTTGGA
TGTGGTGGAGGTATTTTGACGGAACCTCTTGCAAGACTTAAAGCACAAATGACGGGAATT
GATCCAAATGAAGATCTGATTGCAGTGGCAAAAGAGCACATTGAGCCACAAAAAGATATT
AGCGATAATGTTGTTTACTTGACAGAAACTATTGAGGAACATTGCGAGAAATTTTCGAAT
TATTATGATCTTGTTATTTGCAGTGAAGTTCTTGATCATGTTCCAGATAGAAAGTCAATT
CTTGTTGCTGCTTCAAAAGTTCTGAAAAATGGTGGAAGTATTTTTGTTTCGACTTTCAAT
AAGACTTTTTGGTCTTGGTTTCTTGCAATCGTTTGTGGTGAATATATTTTGAGAGTCATA
CCACGTGGAAGTCATCACTACAACATGTTTATTTCACCTCAAGAAGTTTCTGATATTCTA
AAAGAACTAAATTTTAAGACAAAAAGTTTGAAAGGTTTTTTGTATAATTTAATTACTAGA
AAGTTTTATGTTCATAATTGGATTGGATTCAGTTATGCATTGCATGCTGTTAAAGGAAAA
GAAAATTTAATTGAATGA
>g4717.t1 Gene=g4717 Length=265
MLQSDKELLDRNILPSEQKSFSPLAKDWWNKKNGPACVIHDMNDFRIKLIFDYLISTGVL
KPWQRNQPDALQGLKILDLGCGGGILTEPLARLKAQMTGIDPNEDLIAVAKEHIEPQKDI
SDNVVYLTETIEEHCEKFSNYYDLVICSEVLDHVPDRKSILVAASKVLKNGGSIFVSTFN
KTFWSWFLAIVCGEYILRVIPRGSHHYNMFISPQEVSDILKELNFKTKSLKGFLYNLITR
KFYVHNWIGFSYALHAVKGKENLIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4717.t1 | CDD | cd02440 | AdoMet_MTases | 75 | 179 | 8.41386E-15 |
| 6 | g4717.t1 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 17 | 259 | 3.1E-60 |
| 4 | g4717.t1 | Hamap | MF_00472 | Ubiquinone biosynthesis O-methyltransferase [ubiG]. | 17 | 259 | 33.541969 |
| 2 | g4717.t1 | PANTHER | PTHR43464 | METHYLTRANSFERASE | 12 | 241 | 1.2E-55 |
| 3 | g4717.t1 | PANTHER | PTHR43464:SF25 | UBIQUINONE BIOSYNTHESIS O-METHYLTRANSFERASE, MITOCHONDRIAL | 12 | 241 | 1.2E-55 |
| 1 | g4717.t1 | Pfam | PF13847 | Methyltransferase domain | 73 | 192 | 4.0E-20 |
| 8 | g4717.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 182 | - |
| 9 | g4717.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 183 | 200 | - |
| 7 | g4717.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 201 | 265 | - |
| 5 | g4717.t1 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 22 | 249 | 3.65E-43 |
| 11 | g4717.t1 | TIGRFAM | TIGR01983 | UbiG: 3-demethylubiquinone-9 3-O-methyltransferase | 18 | 248 | 1.3E-67 |
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 transcript has been annotated with K00591 (polyprenyldihydroxybenzoate methyltransferase / 3-demethylubiquinol 3-O-methyltransferase)
Pathway
- This transcript belongs to the following pathways
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.
