General information for g3991.t1
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.t1 | TTS | g3991.t1 | 29399663 | 29399663 |
| chr_3 | g3991 | g3991.t1 | isoform | g3991.t1 | 29399724 | 29400732 |
| chr_3 | g3991 | g3991.t1 | exon | g3991.t1.exon1 | 29399724 | 29400332 |
| chr_3 | g3991 | g3991.t1 | cds | g3991.t1.CDS1 | 29399724 | 29400332 |
| chr_3 | g3991 | g3991.t1 | exon | g3991.t1.exon2 | 29400387 | 29400508 |
| chr_3 | g3991 | g3991.t1 | cds | g3991.t1.CDS2 | 29400387 | 29400508 |
| chr_3 | g3991 | g3991.t1 | exon | g3991.t1.exon3 | 29400576 | 29400732 |
| chr_3 | g3991 | g3991.t1 | cds | g3991.t1.CDS3 | 29400576 | 29400732 |
| chr_3 | g3991 | g3991.t1 | TSS | g3991.t1 | 29400752 | 29400752 |
Sequences
>g3991.t1 Gene=g3991 Length=888
ATGTTTCGTAAATTAAATTTATTTAAAATTTATCGTACGTTTAATAAAAGACAATTATCA
TTGTCTATAAGATGCTGTAATAATTTTACTGAAGAATCTAAGGATTTTACTCATTTTGGT
TTTGAAACTGTCAAAACTGATGAAAAGACAGAAAAGGTACATCAAGTTTTTAAAGATGTT
GCTGAAAAGTATGATTTAATGAATGATGCAATGTCAATGGGTATTCATCGATTATGGAAA
GATATATTTCTAGAAAGACTCTATCCAACATTAGGAACTAAATTATTAGATGTTGCTGGT
GGAACAGGAGATATTGCGTTCAGATATATTAACTATATCAACAATTTAAATAAATCAAAT
CAAGATGCATATAGTAAAAAGAGCTCGGTTACAATTCTTGACATTAATCAGCATATGCTT
AATGTAGGAATGGAAAGAGCTGAAAAACTTGGTCACATATCAAATGAGACGCTTGATGTT
GAATGGGTGTGTGGAAATGCAGAAGAGTTGCCACTTGAAAGTGATCAATTTACAGCATAT
ACAATTGCATTCGGAATTAGAAATGTAACACATATAGACAAAGCATTAAGAGAAGCCTAT
AGAGTTCTTAAACCTGGTGGTCGTTTTATGTGTCTCGAATTTAGTCATATTGAAAATAAT
GAAACACTTCAATGGCTCTATGATCAATATTCTTTTCAAGTTATACCACCGATGGGACAA
ATTTTAGCGAATCAATGGCAACCCTATCAATACTTGGTTGAAAGTATTAGAAAGTTCCCG
AAAAAGTTAGAATTCAAATCAATGATAGAAGAAGCTGGTTTTAAGCAAGTTACATATGAA
AATTTAACTCTTGGAATATGTGCTATTCACTCCGGTTTCAAATTATAG
>g3991.t1 Gene=g3991 Length=295
MFRKLNLFKIYRTFNKRQLSLSIRCCNNFTEESKDFTHFGFETVKTDEKTEKVHQVFKDV
AEKYDLMNDAMSMGIHRLWKDIFLERLYPTLGTKLLDVAGGTGDIAFRYINYINNLNKSN
QDAYSKKSSVTILDINQHMLNVGMERAEKLGHISNETLDVEWVCGNAEELPLESDQFTAY
TIAFGIRNVTHIDKALREAYRVLKPGGRFMCLEFSHIENNETLQWLYDQYSFQVIPPMGQ
ILANQWQPYQYLVESIRKFPKKLEFKSMIEEAGFKQVTYENLTLGICAIHSGFKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3991.t1 | CDD | cd02440 | AdoMet_MTases | 94 | 211 | 2.3495E-12 |
| 6 | g3991.t1 | Gene3D | G3DSA:3.40.50.150 | Vaccinia Virus protein VP39 | 59 | 295 | 1.2E-76 |
| 4 | g3991.t1 | Hamap | MF_01813 | Ubiquinone/menaquinone biosynthesis C-methyltransferase UbiE [ubiE]. | 44 | 294 | 37.418617 |
| 2 | g3991.t1 | PANTHER | PTHR43591 | METHYLTRANSFERASE | 8 | 294 | 8.3E-79 |
| 3 | g3991.t1 | PANTHER | PTHR43591:SF61 | 2-METHOXY-6-POLYPRENYL-1,4-BENZOQUINOL METHYLASE, MITOCHONDRIAL | 8 | 294 | 8.3E-79 |
| 1 | g3991.t1 | Pfam | PF01209 | ubiE/COQ5 methyltransferase family | 46 | 294 | 2.4E-87 |
| 8 | g3991.t1 | ProSitePatterns | PS01183 | ubiE/COQ5 methyltransferase family signature 1. | 64 | 79 | - |
| 9 | g3991.t1 | ProSitePatterns | PS01184 | ubiE/COQ5 methyltransferase family signature 2. | 201 | 215 | - |
| 11 | g3991.t1 | ProSiteProfiles | PS51608 | UbiE family SAM-binding methyltransferase profile. | 48 | 294 | 92.226 |
| 5 | g3991.t1 | SUPERFAMILY | SSF53335 | S-adenosyl-L-methionine-dependent methyltransferases | 41 | 281 | 3.65E-37 |
| 10 | g3991.t1 | TIGRFAM | TIGR01934 | MenG_MenH_UbiE: ubiquinone/menaquinone biosynthesis methyltransferase | 53 | 294 | 2.6E-79 |
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 transcript has been annotated with K06127 (2-methoxy-6-polyprenyl-1,4-benzoquinol methylase)
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.
