Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Senecionine N-oxygenase.

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_1 g9771 g9771.t2 TSS g9771.t2 5109251 5109251
chr_1 g9771 g9771.t2 isoform g9771.t2 5109433 5110509
chr_1 g9771 g9771.t2 exon g9771.t2.exon1 5109433 5110509
chr_1 g9771 g9771.t2 cds g9771.t2.CDS1 5109433 5110509
chr_1 g9771 g9771.t2 TTS g9771.t2 5110681 5110681

Sequences

>g9771.t2 Gene=g9771 Length=1077
ATGATGGAATTTAGTGATTTTTCTTATGATGAAAATGTAACTGATTCTTTTCTGACACCA
GATAAGGTTCAAAATTATTTTCTAAAATATACTGAGAAGTTTGACTTAAGAAAACACATA
AAATTCAATCACAAAGTCATCAATGTTCAACCAATATCTGATAATCAATGGGAAATAATT
GTTGAAGATTTAAAGAATGATGAATACAAAACAATAACATGTGATAAAGTCTTTATTTGC
ATTGGAATTTCTGCACCTTGGATACCAAAAATTGAAGGTCTAAATGATTTTGAAGGTAAA
ATCATTCATTCTCGTGATTATCGTTCAACAAAGATGTTCGAAAATAAAAAAGTCTTACTC
ATGGGAAGTGGAGTAAGTGCTTTAGATATGGTCATTGAAATTGACAAAGTAGCTGAGAAA
GTCATTTGGATAAATAATTTTAGACAAACTCATGGTGCACAAATAAAGCTAGAACTGTCT
GATAAAACTATTGATAAATCATCTACTGTCAAAAGGTTCACAAAAAGTGGAGCAGAATTT
GAAGATGGAACTTTTGAAGAATTTGAAATTATTGCTCTAGCTACAGGATATGATTTCACT
TTTCCATTTTTATCAGTTGACTCTGGAATTTCAGTTTATGACAAATTAGTTCAGCAACTT
TATAAACAAATAATTAATGCAAATCGACCATCAATGGCTATCATTGGATTGCCTTTATTT
TCAATAACAATGCCATTATTTGAGCTACAAATTAAATTCTGTCTTCAATATTGGTCAGGT
AGAAAGAATTTTCCTTCAAAAGATGAAATGTTGAAAGTTATTCAAAAAGATATTAAAGTT
CTAAAAATTGACGAGAATGTTCACAAAGCACAATGTTTGGGACTAGCAAGTGATGAAATT
TATTACAATGATCTCGCACAGACAGCAGAAATTAAGCCACTTAAGCCAGTTTTTATAAAA
ATGTGTAATTTTCAAGTGAAAAACTCATCGAAAAATTACAGAAATTTTCGTGATTACGAA
TTTAAAATTTTGAATGATTTTGAATTTTCGATTGAATGTTTGACTAAAGAAAAATAA

>g9771.t2 Gene=g9771 Length=358
MMEFSDFSYDENVTDSFLTPDKVQNYFLKYTEKFDLRKHIKFNHKVINVQPISDNQWEII
VEDLKNDEYKTITCDKVFICIGISAPWIPKIEGLNDFEGKIIHSRDYRSTKMFENKKVLL
MGSGVSALDMVIEIDKVAEKVIWINNFRQTHGAQIKLELSDKTIDKSSTVKRFTKSGAEF
EDGTFEEFEIIALATGYDFTFPFLSVDSGISVYDKLVQQLYKQIINANRPSMAIIGLPLF
SITMPLFELQIKFCLQYWSGRKNFPSKDEMLKVIQKDIKVLKIDENVHKAQCLGLASDEI
YYNDLAQTAEIKPLKPVFIKMCNFQVKNSSKNYRNFRDYEFKILNDFEFSIECLTKEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g9771.t2 Gene3D G3DSA:3.50.50.60 - 1 341 0
13 g9771.t2 Gene3D G3DSA:3.50.50.60 - 91 195 0
3 g9771.t2 PANTHER PTHR23023 DIMETHYLANILINE MONOOXYGENASE 1 317 0
16 g9771.t2 PIRSF PIRSF000332 FMO 1 155 0
15 g9771.t2 PIRSF PIRSF000332 FMO 157 341 0
9 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 15 30 0
5 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 40 52 0
4 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 56 72 0
6 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 102 116 0
8 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 129 144 0
10 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 181 208 0
7 g9771.t2 PRINTS PR00370 Flavin-containing monooxygenase (FMO) signature 245 258 0
2 g9771.t2 Pfam PF00743 Flavin-binding monooxygenase-like 1 142 0
1 g9771.t2 Pfam PF00743 Flavin-binding monooxygenase-like 167 315 0
12 g9771.t2 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 1 144 0
11 g9771.t2 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 170 347 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:0050661 NADP binding MF
GO:0050660 flavin adenine dinucleotide binding MF
GO:0004499 N,N-dimethylaniline monooxygenase activity MF
GO:0055114 NA NA

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. There were no conditions that were differentially expressed