General information for g3991.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 2-methoxy-6-polyprenyl-1,4-benzoquinol methylase, mitochondrial.
Parent gene
- The parent gene g3991 is located on chr_3: 29399724..29400732 (- 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 | g3991 | g3991.t2 | TTS | g3991.t2 | 29399235 | 29399235 |
| chr_3 | g3991 | g3991.t2 | isoform | g3991.t2 | 29399540 | 29400337 |
| chr_3 | g3991 | g3991.t2 | exon | g3991.t2.exon1 | 29399540 | 29400337 |
| chr_3 | g3991 | g3991.t2 | cds | g3991.t2.CDS1 | 29399724 | 29400197 |
| chr_3 | g3991 | g3991.t2 | TSS | g3991.t2 | 29400752 | 29400752 |
Sequences
>g3991.t2 Gene=g3991 Length=798
CTCAGAAATTATTAGATGTTGCTGGTGGAACAGGAGATATTGCGTTCAGATATATTAACT
ATATCAACAATTTAAATAAATCAAATCAAGATGCATATAGTAAAAAGAGCTCGGTTACAA
TTCTTGACATTAATCAGCATATGCTTAATGTAGGAATGGAAAGAGCTGAAAAACTTGGTC
ACATATCAAATGAGACGCTTGATGTTGAATGGGTGTGTGGAAATGCAGAAGAGTTGCCAC
TTGAAAGTGATCAATTTACAGCATATACAATTGCATTCGGAATTAGAAATGTAACACATA
TAGACAAAGCATTAAGAGAAGCCTATAGAGTTCTTAAACCTGGTGGTCGTTTTATGTGTC
TCGAATTTAGTCATATTGAAAATAATGAAACACTTCAATGGCTCTATGATCAATATTCTT
TTCAAGTTATACCACCGATGGGACAAATTTTAGCGAATCAATGGCAACCCTATCAATACT
TGGTTGAAAGTATTAGAAAGTTCCCGAAAAAGTTAGAATTCAAATCAATGATAGAAGAAG
CTGGTTTTAAGCAAGTTACATATGAAAATTTAACTCTTGGAATATGTGCTATTCACTCCG
GTTTCAAATTATAGATTAAAACATTAGAAAACATTATGTAATAAACATTAAACATTGACA
AGTTCTACAAAAAAAGTTAGACTTACAAACGGAATTCAGAATCAGGTAGTTTCCAAAATT
TTAAAGATTTATTCATCATTTTACAGCATTTCGTATTATAAAGTTGTTATATTTCTAATT
ACTTTTACTTAAAAAAGT
>g3991.t2 Gene=g3991 Length=157
MLNVGMERAEKLGHISNETLDVEWVCGNAEELPLESDQFTAYTIAFGIRNVTHIDKALRE
AYRVLKPGGRFMCLEFSHIENNETLQWLYDQYSFQVIPPMGQILANQWQPYQYLVESIRK
FPKKLEFKSMIEEAGFKQVTYENLTLGICAIHSGFKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3991.t2 | CDD | cd02440 | AdoMet_MTases | 22 | 73 | 7.69401E-7 |
| 5 | g3991.t2 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 1 | 157 | 1.4E-51 |
| 2 | g3991.t2 | PANTHER | PTHR43591 | METHYLTRANSFERASE | 1 | 156 | 3.0E-48 |
| 3 | g3991.t2 | PANTHER | PTHR43591:SF24 | 2-METHOXY-6-POLYPRENYL-1,4-BENZOQUINOL METHYLASE, MITOCHONDRIAL | 1 | 156 | 3.0E-48 |
| 1 | g3991.t2 | Pfam | PF01209 | ubiE/COQ5 methyltransferase family | 1 | 156 | 2.8E-58 |
| 7 | g3991.t2 | ProSitePatterns | PS01184 | ubiE/COQ5 methyltransferase family signature 2. | 63 | 77 | - |
| 8 | g3991.t2 | ProSiteProfiles | PS51608 | UbiE family SAM-binding methyltransferase profile. | 1 | 156 | 62.418 |
| 4 | g3991.t2 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 20 | 151 | 5.41E-24 |
| 9 | g3991.t2 | TIGRFAM | TIGR01934 | MenG_MenH_UbiE: ubiquinone/menaquinone biosynthesis methyltransferase | 1 | 156 | 3.6E-52 |
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:0008168 | methyltransferase activity | 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.
