General information for g12378.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ubiquinone biosynthesis O-methyltransferase, mitochondrial.
Parent gene
- The parent gene g12378 is located on chr_1: 23171501..23172279 (+ 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 | g12378 | g12378.t1 | isoform | g12378.t1 | 23171501 | 23172279 |
| chr_1 | g12378 | g12378.t1 | exon | g12378.t1.exon1 | 23171501 | 23171723 |
| chr_1 | g12378 | g12378.t1 | cds | g12378.t1.CDS1 | 23171501 | 23171723 |
| chr_1 | g12378 | g12378.t1 | exon | g12378.t1.exon2 | 23171786 | 23172279 |
| chr_1 | g12378 | g12378.t1 | cds | g12378.t1.CDS2 | 23171786 | 23172279 |
| chr_1 | g12378 | g12378.t1 | TTS | g12378.t1 | 23172964 | 23172964 |
| chr_1 | g12378 | g12378.t1 | TSS | g12378.t1 | NA | NA |
Sequences
>g12378.t1 Gene=g12378 Length=717
ATGTTAACTGCAGCAGTGCAATCAAATTTTAACGAAAAAAATGTTGATCCAAAAGACATC
AAAAGATTCAATAAACAAGCAAATGAATGGTGGGATCCAAAAGGTGTTCAACATGGATTG
CATGCTATGAATTACATGAGAGTTCCTTGGGTTCTTGAAGGACTTAAAGAGACAAATTAT
ATCAGTAAAGATGCAACAAATCTTGAAGGATGTTTGATTTTGGATGCTGGCTGTGGAGGA
GGAATTTATGCTGAAGGTTTAGCAAAGTTGGGTGCAAAAGTGATTGGTTTAGATTGTGCT
AGAGAGTTGTTGGAAGTTGCACAAAATCATCTCAATACACAACATGATATTAAAGATAAA
GTGACTTATGTTTGTGAAACTATTGAAGAACATTGCTTAAAAAATGAGAACAAATATGAT
GCAATTGTGTGCAGTGAAGTCATTGAGCATATTATTGATAAAAATTCATTCCTTAAAGCT
TGCATTAAAACACTTAAACCTGGTGGAAGCATTTTTATGACAACAATCAGTCACACTTTT
GCTGCTTGGTTTCTTTATAAATTTATGGGTGAATATGTGTTAGGTTTGATTGAAAGAGGA
ACTCATGATCCAAAACTTTTTATTGATCACAAAGATTTAGCGAAAATCTTAGAGAATAAT
AATGTGAAAATTTTGTCAGTGAAAGGAACAACTTATGATTTTTATAGACAACGATAA
>g12378.t1 Gene=g12378 Length=238
MLTAAVQSNFNEKNVDPKDIKRFNKQANEWWDPKGVQHGLHAMNYMRVPWVLEGLKETNY
ISKDATNLEGCLILDAGCGGGIYAEGLAKLGAKVIGLDCARELLEVAQNHLNTQHDIKDK
VTYVCETIEEHCLKNENKYDAIVCSEVIEHIIDKNSFLKACIKTLKPGGSIFMTTISHTF
AAWFLYKFMGEYVLGLIERGTHDPKLFIDHKDLAKILENNNVKILSVKGTTYDFYRQR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12378.t1 | CDD | cd02440 | AdoMet_MTases | 73 | 174 | 0 |
| 5 | g12378.t1 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 19 | 238 | 0 |
| 2 | g12378.t1 | PANTHER | PTHR43464 | METHYLTRANSFERASE | 8 | 233 | 0 |
| 3 | g12378.t1 | PANTHER | PTHR43464:SF25 | UBIQUINONE BIOSYNTHESIS O-METHYLTRANSFERASE, MITOCHONDRIAL | 8 | 233 | 0 |
| 1 | g12378.t1 | Pfam | PF08241 | Methyltransferase domain | 74 | 172 | 0 |
| 4 | g12378.t1 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 22 | 235 | 0 |
| 6 | g12378.t1 | TIGRFAM | TIGR01983 | UbiG: 3-demethylubiquinone-9 3-O-methyltransferase | 20 | 237 | 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: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