General information for g9020.t19
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cysteine dioxygenase.
Parent gene
- The parent gene g9020 is located on chr_2: 34691569..34692845 (- 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_2 | g9020 | g9020.t19 | TTS | g9020.t19 | 34690498 | 34690498 |
| chr_2 | g9020 | g9020.t19 | isoform | g9020.t19 | 34690512 | 34692845 |
| chr_2 | g9020 | g9020.t19 | exon | g9020.t19.exon1 | 34690512 | 34690968 |
| chr_2 | g9020 | g9020.t19 | exon | g9020.t19.exon2 | 34691459 | 34691853 |
| chr_2 | g9020 | g9020.t19 | cds | g9020.t19.CDS1 | 34691496 | 34691853 |
| chr_2 | g9020 | g9020.t19 | exon | g9020.t19.exon3 | 34692696 | 34692845 |
| chr_2 | g9020 | g9020.t19 | cds | g9020.t19.CDS2 | 34692696 | 34692721 |
| chr_2 | g9020 | g9020.t19 | TSS | g9020.t19 | 34693064 | 34693064 |
Sequences
>g9020.t19 Gene=g9020 Length=1002
ATGATGTCCATTGAATACAAGTGTGAAGAAGATGAGCAGAAGAAGAAATTACGTGAGCTC
ACTAAATCTTTTTGTGGTATTGATAAGCCGTTAAAAAATTACGTGAATCACGTGGAGAGT
TTAAATGAACTTATACGTGAGCTTCACGTTGTATACGCGAAATCTTGTGGATGCAGGCAA
TGATAAGTTTAATTTGATGATTCTTTGCTGGAATGAAGGACAAACTTCGGCAATTCATGA
TCATGCTGATTCACATTGTTTTATGAAAGTTTTAAAAGGAGGATTAACTGAAGTTAAATA
TTTGATGCCAAATCAAAATAATACACAAATTTCACATATGGAACCAAACCTTCCTGCTGA
TATTGGCATCTATCATCATCCAGAAGAAGAACACCACAATGAAGAACAATTACAAGAAAT
TTGCAGAACAACTCTCTATGAGAATCAAGTTTGTTACATCAATGGTAATTTTTTTTTATT
CATTTTAGTTACAATTATGTATTATTAATTTTTGCTCATTCAATTAGATAACTTGGGTTT
GCATCTTATGTCTTTTAAGGTCACTTTTTGGAGTAAATTTGGCAAACGTGAAAAAATTCC
AGAATGAGCAAGTCAAATGCAGCAATATGTAGCAATGGCAGCAGCATACAAAAATATTAG
CAATAAGAATTAATTAAGTAATTCAAATGAAAATTATACACTTTTTTAACAATTTTTTTT
TGCATTTATTTAAATCTGTGTATTTTTTTTCTCTTTTTAATGACTCATCATTCTTATAAT
TATGAGATTAATTAAAAGCTATTATTTGGCGCAATTTTCACAAAAAATAAAAATTTTTTG
ATAGAGGAAAATTTTTTGAAGAAAGAGATAAAAGATATGATAAATAAATAAGAGATTTAT
ATTGTACAATAGATGAATGATAGAGAGATTTTACACGAATTTATATGTTAAATTATGTTT
CTTCTATGTAGCAAATGTAAAAATAGTGATAGCAAATAAAAT
>g9020.t19 Gene=g9020 Length=127
MNLYVSFTLYTRNLVDAGNDKFNLMILCWNEGQTSAIHDHADSHCFMKVLKGGLTEVKYL
MPNQNNTQISHMEPNLPADIGIYHHPEEEHHNEEQLQEICRTTLYENQVCYINGNFFLFI
LVTIMYY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9020.t19 | CDD | cd10548 | cupin_CDO | 10 | 62 | 6.46626E-24 |
| 5 | g9020.t19 | Gene3D | G3DSA:2.60.120.10 | Jelly Rolls | 2 | 119 | 8.9E-32 |
| 2 | g9020.t19 | PANTHER | PTHR12918 | CYSTEINE DIOXYGENASE | 9 | 116 | 1.3E-30 |
| 1 | g9020.t19 | Pfam | PF05995 | Cysteine dioxygenase type I | 9 | 72 | 1.8E-21 |
| 4 | g9020.t19 | SUPERFAMILY | SSF51182 | RmlC-like cupins | 10 | 115 | 2.52E-23 |
| 3 | g9020.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 109 | 126 | - |
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:0016702 | oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen | MF |
| GO:0005506 | iron ion binding | 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.
