General information for g17071.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Senecionine N-oxygenase.
Parent gene
- The parent gene g17071 is located on chr_4: 12395668..12397000 (- 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_4 | g17071 | g17071.t1 | isoform | g17071.t1 | 12395668 | 12397000 |
| chr_4 | g17071 | g17071.t1 | exon | g17071.t1.exon1 | 12395668 | 12396902 |
| chr_4 | g17071 | g17071.t1 | cds | g17071.t1.CDS1 | 12395668 | 12396902 |
| chr_4 | g17071 | g17071.t1 | exon | g17071.t1.exon2 | 12396967 | 12397000 |
| chr_4 | g17071 | g17071.t1 | cds | g17071.t1.CDS2 | 12396967 | 12397000 |
| chr_4 | g17071 | g17071.t1 | TSS | g17071.t1 | 12397049 | 12397049 |
| chr_4 | g17071 | g17071.t1 | TTS | g17071.t1 | NA | NA |
Sequences
>g17071.t1 Gene=g17071 Length=1269
ATGAAGCTTTGCATTATAGGTGCTGGTGCAGCTGGTCTCTGTGCAATAAAGCATGCAATT
GATCATGGTTTCGAAGTCATTACAGCTTATGAGCAGTCAAAAGAAATTGGAGGAACTTGG
GTTTATACTGATGAAATTGGTAAAGATAAATATGGCTTAGACATTCATTCAAGCATGTAT
CAAGGACTACAAACCAATTCACCAAAAGAAATCATGCAATATCCTCACTTTCCGTATCCT
GAACAAGAAAAATCATTTATACCTTCCGAGGAAGTTCTGAAGTATTACCATTTATATGCT
AACACTTTTAACTTACAAAAATACATTAAATTTGAACATCATGTGATTCGAGTACGTCCA
CTAAATGGAAGCAAGGGATGGGAAGTGATTGTTAAGGATTTAAAAAGTGGGGAATACAAT
TTAATTGAATATGATGCAGTTCTTGTTTGTAATGGTCATTATAATTCTCCAAATATTCCA
TTTTATGAAGGTCAAGATGTTTTTGAAGGAAAACAAATGCATTCACACGATTATAGAAAT
GCAAAATATTTTCAAGATGAAACTGTCCTAGTTATTGGTGCTGGACCAAGTGGACGTGAT
GTAGTAAGTGAAATTCAATATGTATCAAAAAATGTCGTCTGGTCACATCATGATGGGAAG
CTTTCATCGCAAAGTTTTCGAGAAAATGTTATCCATAAATCTGATGTAGAACAGTTCACC
AAAGACGGAGCAATATTTGCTGATGGAAGTTATCAGAAATGTTCTATAATTCTTTATTGT
ACTGGTTATCGTTATTCATTCCCTTTTTTATCAGTTGAATGTGGAATATCTTCTGTAAAT
AACTGCATTGAGCCTCTTTATAAACATTGTATCAACATTAATAATCCAACAATGGCTTTC
ATTGGTCTGCCACTCTACGTTTGTGATAATCAAATGTTTGATCTGCAAACAAGGTTCTGT
TTAAAATTTATATCAGGAATGAAAAAAATGCCTAGTAAGAATGAAATGATTGATGATTTG
GAAAATGACAAAAAGATTCAACTTATTGACAGAAAGTTGCCAAAGAAGAAATTTCATTTT
TTGGGTATCGGTTATCATCAAGTCTATTATAAATCACTCGCAAAAATAGCAGAAATTGAA
CCAATCAAGCCTGTAATTGGAAATATTTTTGAAAACATGTTGAACGATTTCGGCAATGAT
TATTTTAGTTTTCGTAAAAAAGCTTTCAAAATTATCGATGATGAGAATTTTGTTACAATT
TCTGTTTGA
>g17071.t1 Gene=g17071 Length=422
MKLCIIGAGAAGLCAIKHAIDHGFEVITAYEQSKEIGGTWVYTDEIGKDKYGLDIHSSMY
QGLQTNSPKEIMQYPHFPYPEQEKSFIPSEEVLKYYHLYANTFNLQKYIKFEHHVIRVRP
LNGSKGWEVIVKDLKSGEYNLIEYDAVLVCNGHYNSPNIPFYEGQDVFEGKQMHSHDYRN
AKYFQDETVLVIGAGPSGRDVVSEIQYVSKNVVWSHHDGKLSSQSFRENVIHKSDVEQFT
KDGAIFADGSYQKCSIILYCTGYRYSFPFLSVECGISSVNNCIEPLYKHCININNPTMAF
IGLPLYVCDNQMFDLQTRFCLKFISGMKKMPSKNEMIDDLENDKKIQLIDRKLPKKKFHF
LGIGYHQVYYKSLAKIAEIEPIKPVIGNIFENMLNDFGNDYFSFRKKAFKIIDDENFVTI
SV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g17071.t1 | Gene3D | G3DSA:3.50.50.60 | - | 2 | 407 | 1.2E-133 |
| 13 | g17071.t1 | Gene3D | G3DSA:3.50.50.60 | - | 161 | 260 | 1.2E-133 |
| 3 | g17071.t1 | PANTHER | PTHR23023:SF208 | FLAVIN-CONTAINING MONOOXYGENASE | 2 | 417 | 6.0E-85 |
| 4 | g17071.t1 | PANTHER | PTHR23023 | DIMETHYLANILINE MONOOXYGENASE | 2 | 417 | 6.0E-85 |
| 20 | g17071.t1 | PIRSF | PIRSF000332 | FMO | 1 | 224 | 7.0E-54 |
| 19 | g17071.t1 | PIRSF | PIRSF000332 | FMO | 220 | 390 | 2.0E-16 |
| 9 | g17071.t1 | PRINTS | PR00370 | Flavin-containing monooxygenase (FMO) signature | 1 | 17 | 2.4E-24 |
| 6 | g17071.t1 | PRINTS | PR00370 | Flavin-containing monooxygenase (FMO) signature | 26 | 50 | 2.4E-24 |
| 5 | g17071.t1 | PRINTS | PR00370 | Flavin-containing monooxygenase (FMO) signature | 144 | 160 | 2.4E-24 |
| 8 | g17071.t1 | PRINTS | PR00370 | Flavin-containing monooxygenase (FMO) signature | 200 | 215 | 2.4E-24 |
| 7 | g17071.t1 | PRINTS | PR00370 | Flavin-containing monooxygenase (FMO) signature | 247 | 274 | 2.4E-24 |
| 2 | g17071.t1 | Pfam | PF00743 | Flavin-binding monooxygenase-like | 2 | 219 | 5.5E-45 |
| 1 | g17071.t1 | Pfam | PF00743 | Flavin-binding monooxygenase-like | 228 | 353 | 4.6E-16 |
| 15 | g17071.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 16 | g17071.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 17 | g17071.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 14 | - |
| 18 | g17071.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 15 | 19 | - |
| 14 | g17071.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 422 | - |
| 11 | g17071.t1 | SUPERFAMILY | SSF51905 | FAD/NAD(P)-binding domain | 1 | 219 | 3.31E-47 |
| 10 | g17071.t1 | SUPERFAMILY | SSF51905 | FAD/NAD(P)-binding domain | 231 | 408 | 8.55E-7 |
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