General information for g5244.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 g5244 is located on chr_2: 8095633..8096724 (+ 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 | g5244 | g5244.t1 | TSS | g5244.t1 | 8095587 | 8095587 |
| chr_2 | g5244 | g5244.t1 | isoform | g5244.t1 | 8095633 | 8096724 |
| chr_2 | g5244 | g5244.t1 | exon | g5244.t1.exon1 | 8095633 | 8095861 |
| chr_2 | g5244 | g5244.t1 | cds | g5244.t1.CDS1 | 8095633 | 8095861 |
| chr_2 | g5244 | g5244.t1 | exon | g5244.t1.exon2 | 8096174 | 8096724 |
| chr_2 | g5244 | g5244.t1 | cds | g5244.t1.CDS2 | 8096174 | 8096724 |
| chr_2 | g5244 | g5244.t1 | TTS | g5244.t1 | 8096937 | 8096937 |
Sequences
>g5244.t1 Gene=g5244 Length=780
ATGGAAACTGATCAGCAATTGTTAGAGAAAAATATTGATCCATCAGAAATCAAGCGTTTT
TCACCAATGGCTAAAGAATGGTGGAATGCAAAAAATGGTCCAATGTTTGTGCTGCACGAT
ATGAATAAAATGAGGCTTGATCTCGTTTTTGATGGTTTGATATCAACTGGTGTTATAAAA
TCATGGCAAAGAAATGAGCCAAATGCATTTCAAGGACTAAAAATTTTAGACCTTGGCTGT
GGAGGAGGAATTTTAGTTGAAGCTCTAGCAAAACTCAAAGCAGAAGTTACTGGCTTAGAT
CCTAATGAAGCCCTTCTAGATATTGCAAAAGAACATATTGAAACACAAAAAGATATTCGT
GGCAATGTTCGCTATTTACTTGAAACAATTGAAGAACATTGCAAGACACATCCAAATTAT
TATGATGTGATCACTTGCAGTGAAGTTCTTGAACATGTTATTGACAAAAAATCACTTTTG
GAAGCTGCTTGTAAATCCCTAAAACCTGGTGGGAGTATTTTCATTACAACTTTCAACAAA
AACTTTTACTCTTGGTTTATAGTTATTCTTTTTGGCGAATATATTCTAAGAATTTTACCT
ATCGGTTGTCATTCATATGATTTGTTTATTTCACCAGAGGATGTTACAAAAATTTTGGAA
AAATCAAATTGCAAAATCAACATTTTGAGAGGAATTTTGTACAACTTCATTGGACGTTAT
TATTGGGTTTTTGGATGGCTTGGTCATCATTACGCTATGCAAGCAGTTAAAGATCATTGA
>g5244.t1 Gene=g5244 Length=259
METDQQLLEKNIDPSEIKRFSPMAKEWWNAKNGPMFVLHDMNKMRLDLVFDGLISTGVIK
SWQRNEPNAFQGLKILDLGCGGGILVEALAKLKAEVTGLDPNEALLDIAKEHIETQKDIR
GNVRYLLETIEEHCKTHPNYYDVITCSEVLEHVIDKKSLLEAACKSLKPGGSIFITTFNK
NFYSWFIVILFGEYILRILPIGCHSYDLFISPEDVTKILEKSNCKINILRGILYNFIGRY
YWVFGWLGHHYAMQAVKDH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g5244.t1 | CDD | cd02440 | AdoMet_MTases | 74 | 178 | 1.09949E-14 |
| 6 | g5244.t1 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 16 | 257 | 1.4E-57 |
| 4 | g5244.t1 | Hamap | MF_00472 | Ubiquinone biosynthesis O-methyltransferase [ubiG]. | 16 | 258 | 33.57468 |
| 2 | g5244.t1 | PANTHER | PTHR43464 | METHYLTRANSFERASE | 7 | 244 | 5.1E-55 |
| 3 | g5244.t1 | PANTHER | PTHR43464:SF25 | UBIQUINONE BIOSYNTHESIS O-METHYLTRANSFERASE, MITOCHONDRIAL | 7 | 244 | 5.1E-55 |
| 1 | g5244.t1 | Pfam | PF08241 | Methyltransferase domain | 76 | 175 | 6.6E-20 |
| 8 | g5244.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 181 | - |
| 9 | g5244.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 182 | 199 | - |
| 7 | g5244.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 200 | 259 | - |
| 5 | g5244.t1 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 37 | 247 | 8.06E-40 |
| 13 | g5244.t1 | TIGRFAM | TIGR01983 | UbiG: 3-demethylubiquinone-9 3-O-methyltransferase | 16 | 239 | 5.6E-68 |
| 12 | g5244.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 182 | 201 | - |
| 11 | g5244.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 226 | 248 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5244/g5244.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5244.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0008425 | 2-polyprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity | MF |
| GO:0008168 | 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. There were no conditions that were differentially expressed