General information for g10240.t16
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 1-2-dihydroxy-3-keto-5-methylthiopentene dioxygenase.
Parent gene
- The parent gene g10240 is located on chr_1: 8456092..8458159 (- 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_1 | g10240 | g10240.t16 | TTS | g10240.t16 | 8455849 | 8455849 |
| chr_1 | g10240 | g10240.t16 | isoform | g10240.t16 | 8455864 | 8458159 |
| chr_1 | g10240 | g10240.t16 | exon | g10240.t16.exon1 | 8455864 | 8456001 |
| chr_1 | g10240 | g10240.t16 | exon | g10240.t16.exon2 | 8456080 | 8456173 |
| chr_1 | g10240 | g10240.t16 | exon | g10240.t16.exon3 | 8456350 | 8456683 |
| chr_1 | g10240 | g10240.t16 | cds | g10240.t16.CDS1 | 8456552 | 8456683 |
| chr_1 | g10240 | g10240.t16 | exon | g10240.t16.exon4 | 8456829 | 8456906 |
| chr_1 | g10240 | g10240.t16 | cds | g10240.t16.CDS2 | 8456829 | 8456906 |
| chr_1 | g10240 | g10240.t16 | exon | g10240.t16.exon5 | 8458034 | 8458159 |
| chr_1 | g10240 | g10240.t16 | cds | g10240.t16.CDS3 | 8458034 | 8458159 |
| chr_1 | g10240 | g10240.t16 | TSS | g10240.t16 | 8458256 | 8458256 |
Sequences
>g10240.t16 Gene=g10240 Length=770
ATGGTGAGAGCATGGTTCATGGATAATGATGTTGAATCAGATCAACGATTAGAGCATCAC
CGTTCACCACCTGAATTTGTCGATTTAGACAAATTATTCGAGCTTACTGGTGTGAGATAT
TTCAAGTTTGATCCTGAGAGTGTTGAAATGCAAAATAAATTAAATGAATTGAGAAAATCA
AGAGGATATTCATTTGAGGATGAGATAACATGCTCGAAGGAGTGCCTACCTGACTATGAG
AACAAATTGAAAAGTTTTTACGAAGAACATTTGCATACTGATGAAGAAATTCGTTATGTC
TTAGAGGGTCAGGGATATTTCGATGTACGAGAGTAAGTAACTCACACTCCATTCAACTTT
AATTTGTTTTCATATCAACTTCTCAATGGAGCTTTAAGATATAAGCGAACTTTTCATTCG
TATCCTCGCTTGTCTTCATTATATAATCATACGCCTGTCTCATCGTTGGTGTGTTTTGTC
GAAAAAAAACAAATTAATATTCATAAAGCCTTGGAATATTTTCATATCACCACGCACGCG
GTCAGGATCGGTGGATACGTATAGAAGTGATCAAGGGTGACTTGATTATAATTCCAGCTG
GAATTTATCATCGCTTTACACTTAATGTTAATAACTTCATCAAAGCAAAAAGATATTTTG
TTGGAGAGCCTGTTTGGAAGCCATACAACCGAGAGCCATCGACTGATTTTATGGAATGCA
GAGTTAATTATAAAAAGCAACTCGATAATGGATTCGAAATAAAAAGCTGA
>g10240.t16 Gene=g10240 Length=111
MVRAWFMDNDVESDQRLEHHRSPPEFVDLDKLFELTGVRYFKFDPESVEMQNKLNELRKS
RGYSFEDEITCSKECLPDYENKLKSFYEEHLHTDEEIRYVLEGQGYFDVRE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10240.t16 | Gene3D | G3DSA:2.60.120.10 | Jelly Rolls | 1 | 111 | 0 |
| 2 | g10240.t16 | PANTHER | PTHR23418:SF0 | 1,2-DIHYDROXY-3-KETO-5-METHYLTHIOPENTENE DIOXYGENASE | 1 | 110 | 0 |
| 3 | g10240.t16 | PANTHER | PTHR23418 | ACIREDUCTONE DIOXYGENASE | 1 | 110 | 0 |
| 1 | g10240.t16 | Pfam | PF03079 | ARD/ARD’ family | 3 | 110 | 0 |
| 4 | g10240.t16 | SUPERFAMILY | SSF51182 | RmlC-like cupins | 1 | 110 | 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:0010309 | acireductone dioxygenase [iron(II)-requiring] 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.
