General information for g3991.t3
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.t3 | TTS | g3991.t3 | 29399663 | 29399663 |
| chr_3 | g3991 | g3991.t3 | isoform | g3991.t3 | 29399724 | 29400732 |
| chr_3 | g3991 | g3991.t3 | exon | g3991.t3.exon1 | 29399724 | 29400322 |
| chr_3 | g3991 | g3991.t3 | cds | g3991.t3.CDS1 | 29399724 | 29400322 |
| chr_3 | g3991 | g3991.t3 | exon | g3991.t3.exon2 | 29400387 | 29400732 |
| chr_3 | g3991 | g3991.t3 | cds | g3991.t3.CDS2 | 29400387 | 29400432 |
| chr_3 | g3991 | g3991.t3 | TSS | g3991.t3 | 29400752 | 29400752 |
Sequences
>g3991.t3 Gene=g3991 Length=945
ATGTTTCGTAAATTAAATTTATTTAAAATTTATCGTACGTTTAATAAAAGACAATTATCA
TTGTCTATAAGATGCTGTAATAATTTTACTGAAGAATCTAAGGATTTTACTCATTTTGGT
TTTGAAACTGTCAAAACTGATGAAAAGACAGAAAAGGGTAGGAAAATTTATTTTTAATAA
AAAGTACCTATTTCAAATTATTACGTTTTTATTAAATTTTACAGTACATCAAGTTTTTAA
AGATGTTGCTGAAAAGTATGATTTAATGAATGATGCAATGTCAATGGGTATTCATCGATT
ATGGAAAGATATATTTCTAGAAAGACTCTATCCAACATTAGGAACTATGTTGCTGGTGGA
ACAGGAGATATTGCGTTCAGATATATTAACTATATCAACAATTTAAATAAATCAAATCAA
GATGCATATAGTAAAAAGAGCTCGGTTACAATTCTTGACATTAATCAGCATATGCTTAAT
GTAGGAATGGAAAGAGCTGAAAAACTTGGTCACATATCAAATGAGACGCTTGATGTTGAA
TGGGTGTGTGGAAATGCAGAAGAGTTGCCACTTGAAAGTGATCAATTTACAGCATATACA
ATTGCATTCGGAATTAGAAATGTAACACATATAGACAAAGCATTAAGAGAAGCCTATAGA
GTTCTTAAACCTGGTGGTCGTTTTATGTGTCTCGAATTTAGTCATATTGAAAATAATGAA
ACACTTCAATGGCTCTATGATCAATATTCTTTTCAAGTTATACCACCGATGGGACAAATT
TTAGCGAATCAATGGCAACCCTATCAATACTTGGTTGAAAGTATTAGAAAGTTCCCGAAA
AAGTTAGAATTCAAATCAATGATAGAAGAAGCTGGTTTTAAGCAAGTTACATATGAAAAT
TTAACTCTTGGAATATGTGCTATTCACTCCGGTTTCAAATTATAG
>g3991.t3 Gene=g3991 Length=214
MERYISRKTLSNIRNYVAGGTGDIAFRYINYINNLNKSNQDAYSKKSSVTILDINQHMLN
VGMERAEKLGHISNETLDVEWVCGNAEELPLESDQFTAYTIAFGIRNVTHIDKALREAYR
VLKPGGRFMCLEFSHIENNETLQWLYDQYSFQVIPPMGQILANQWQPYQYLVESIRKFPK
KLEFKSMIEEAGFKQVTYENLTLGICAIHSGFKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3991.t3 | CDD | cd02440 | AdoMet_MTases | 17 | 130 | 1.9073E-10 |
| 5 | g3991.t3 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 12 | 214 | 6.6E-61 |
| 2 | g3991.t3 | PANTHER | PTHR43591 | METHYLTRANSFERASE | 17 | 213 | 3.3E-60 |
| 3 | g3991.t3 | PANTHER | PTHR43591:SF24 | 2-METHOXY-6-POLYPRENYL-1,4-BENZOQUINOL METHYLASE, MITOCHONDRIAL | 17 | 213 | 3.3E-60 |
| 1 | g3991.t3 | Pfam | PF01209 | ubiE/COQ5 methyltransferase family | 17 | 213 | 6.5E-67 |
| 7 | g3991.t3 | ProSitePatterns | PS01184 | ubiE/COQ5 methyltransferase family signature 2. | 120 | 134 | - |
| 8 | g3991.t3 | ProSiteProfiles | PS51608 | UbiE family SAM-binding methyltransferase profile. | 1 | 213 | 70.79 |
| 4 | g3991.t3 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 17 | 202 | 5.11E-28 |
| 9 | g3991.t3 | TIGRFAM | TIGR01934 | MenG_MenH_UbiE: ubiquinone/menaquinone biosynthesis methyltransferase | 17 | 213 | 2.2E-59 |
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.
