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_4 g17073 g17073.t1 TSS g17073.t1 12398233 12398233
chr_4 g17073 g17073.t1 isoform g17073.t1 12398772 12399524
chr_4 g17073 g17073.t1 exon g17073.t1.exon1 12398772 12399524
chr_4 g17073 g17073.t1 cds g17073.t1.CDS1 12398772 12399524
chr_4 g17073 g17073.t1 TTS g17073.t1 12400231 12400231

Sequences

>g17073.t1 Gene=g17073 Length=753
ATGTTCAAAAATGAAAATGTTTTAATTATTGGAAGTGGTGCAAGTGCATTTGATATGGTC
GTTGCAATTGATAAAGTTGCAAATAAACTTACTTGGGTACATAAAATTCAACAAACTAAT
GGAACACCAAGAAGCATAAAATTATCACCAACATCGACCGTAAAAAAATATTCAATCAAA
AAATTTACAAAAACTGGTGCAGAATTTGAAGATGGAAGTTTTGAGGAATTTTCAATTATT
GTATTTGCAACAGGATATGATTTTACTTTTCCATTTTTATCAGTTGATTCTGGAATTTCA
GTTTATGACAAATGTGTTCAACCACTTTATAAACAATGCATTAATGCAAATAGACCATCA
TTAGCCATCATTGGTTTACCTTATTTTACACTTCGAATTCCTTTGTTTGAAATTCAAATT
AAATTTTGTATTGAATTTTGGTCAGGAAGAAGAAAATTCCCAAATAGAAATGAAATGCTG
AAAGACATTAAAAAAGATTTTCAAAATCGAAATGTTGACATTGAAGGAAATAGTCATAAA
GTTCATTATTTGGGATTTCAAAATCATCATTTGTATTATGAAGATTTAGCAAGAACTGCA
GGAATTGAAAATGTCAAACCATCACTTTTAAAATTATCTACACACCTTGTAACGCATACA
TTTAAAAATTATCACACATTTCGTGATTTTAAATATAAAATTTTAAATGATTTTGAATTT
TCTTGTGAATGTTTTGAAAAAGAGAATAATTGA

>g17073.t1 Gene=g17073 Length=250
MFKNENVLIIGSGASAFDMVVAIDKVANKLTWVHKIQQTNGTPRSIKLSPTSTVKKYSIK
KFTKTGAEFEDGSFEEFSIIVFATGYDFTFPFLSVDSGISVYDKCVQPLYKQCINANRPS
LAIIGLPYFTLRIPLFEIQIKFCIEFWSGRRKFPNRNEMLKDIKKDFQNRNVDIEGNSHK
VHYLGFQNHHLYYEDLARTAGIENVKPSLLKLSTHLVTHTFKNYHTFRDFKYKILNDFEF
SCECFEKENN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g17073.t1 Gene3D G3DSA:3.50.50.60 - 1 73 8.1E-6
5 g17073.t1 Gene3D G3DSA:3.50.50.60 - 74 248 2.4E-27
2 g17073.t1 PANTHER PTHR23023 DIMETHYLANILINE MONOOXYGENASE 2 207 7.1E-30
1 g17073.t1 Pfam PF00743 Flavin-binding monooxygenase-like 56 212 8.1E-19
8 g17073.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
9 g17073.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
10 g17073.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 17 -
11 g17073.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 18 22 -
7 g17073.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 250 -
4 g17073.t1 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 2 83 1.02E-9
3 g17073.t1 SUPERFAMILY SSF51905 FAD/NAD(P)-binding domain 66 238 9.06E-9

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