Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Ubiquinone biosynthesis O-methyltransferase.

Parent gene

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 g5242 g5242.t1 TSS g5242.t1 8083565 8083565
chr_2 g5242 g5242.t1 isoform g5242.t1 8083617 8084483
chr_2 g5242 g5242.t1 exon g5242.t1.exon1 8083617 8083845
chr_2 g5242 g5242.t1 cds g5242.t1.CDS1 8083617 8083845
chr_2 g5242 g5242.t1 exon g5242.t1.exon2 8083933 8084483
chr_2 g5242 g5242.t1 cds g5242.t1.CDS2 8083933 8084483
chr_2 g5242 g5242.t1 TTS g5242.t1 8084818 8084818

Sequences

>g5242.t1 Gene=g5242 Length=780
ATGAAAACTGATCAGCAATTATTAGAGAAAAATGTCAGTCCATCAGAAATCAAACAATAT
TCGCCAATGGCTAAAGAATGGTGGAATACAAAAGATGGTCCAATGTATATCTTGCACGAC
ATGAATAAAATGAGGCTTGACCTCGTTTTTGATGGTTTGATATCAACTGGTGTTATAAAA
TCATGGCAAAGAAACGAGCCAAATGCATTTCAAGGATTAAAAATTTTAGACCTTGGCTGT
GGTGGAGGAATTTTAGTTGAGGCTCTAGCAAAGCTCAAAGCAGAAGTTACTGGCTTAGAT
CCTAATGAAGCCCTTCTAGAAGTTGCAAAAGAGCACATTGAAACACAAGAAGACATTCGT
GGCAATGTTCGTTATTTACTTGAAACAATTGAAGAACATTGCAAGACACATCCAAATTAT
TATGATGTGATCACTTGCAGTGAAGTTCTTGAACATGTTATTGACAAAAAATCACTTTTG
GAAGCTGCTTGTAAATCTCTTAAACCTGGTGGGAGTATTTTCGTCACAACGTACAACAAA
ACTTTTTTCTCTTGGTTTTTCAGTATTCTTTTTGGCGAATATATTCTTAGAATTGTGCCA
ATTGGGTGTCATTCTTATGGTTTATTTATTTCACCCTATGAAGTTTCAAAAATTTTGGAA
AACTCAAAGTGCAAAACAAACGTGTTGAAAGGAATTTTTTACAACTTTATTGGTCGTTAT
TTTTGGATTTATCAATGGCTTGGATATCATTATGCAATGCAAGCAGTTAAAGATCACTAA

>g5242.t1 Gene=g5242 Length=259
MKTDQQLLEKNVSPSEIKQYSPMAKEWWNTKDGPMYILHDMNKMRLDLVFDGLISTGVIK
SWQRNEPNAFQGLKILDLGCGGGILVEALAKLKAEVTGLDPNEALLEVAKEHIETQEDIR
GNVRYLLETIEEHCKTHPNYYDVITCSEVLEHVIDKKSLLEAACKSLKPGGSIFVTTYNK
TFFSWFFSILFGEYILRIVPIGCHSYGLFISPYEVSKILENSKCKTNVLKGIFYNFIGRY
FWIYQWLGYHYAMQAVKDH

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g5242.t1 CDD cd02440 AdoMet_MTases 74 178 0.00000
6 g5242.t1 Gene3D G3DSA:3.40.50.150 Vaccinia Virus protein VP39 16 258 0.00000
4 g5242.t1 Hamap MF_00472 Ubiquinone biosynthesis O-methyltransferase [ubiG]. 16 258 33.42422
2 g5242.t1 PANTHER PTHR43464 METHYLTRANSFERASE 6 239 0.00000
3 g5242.t1 PANTHER PTHR43464:SF25 UBIQUINONE BIOSYNTHESIS O-METHYLTRANSFERASE, MITOCHONDRIAL 6 239 0.00000
1 g5242.t1 Pfam PF08241 Methyltransferase domain 76 175 0.00000
5 g5242.t1 SUPERFAMILY SSF53335 S-adenosyl-L-methionine-dependent methyltransferases 20 251 0.00000
7 g5242.t1 TIGRFAM TIGR01983 UbiG: 3-demethylubiquinone-9 3-O-methyltransferase 16 240 0.00000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5242/g5242.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5242.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

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