General information for g9020.t25
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cysteine dioxygenase type 1.
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.t25 | TTS | g9020.t25 | 34690498 | 34690498 |
| chr_2 | g9020 | g9020.t25 | isoform | g9020.t25 | 34690512 | 34692845 |
| chr_2 | g9020 | g9020.t25 | exon | g9020.t25.exon1 | 34690512 | 34690954 |
| chr_2 | g9020 | g9020.t25 | exon | g9020.t25.exon2 | 34691245 | 34691374 |
| chr_2 | g9020 | g9020.t25 | cds | g9020.t25.CDS1 | 34691361 | 34691374 |
| chr_2 | g9020 | g9020.t25 | exon | g9020.t25.exon3 | 34691540 | 34691884 |
| chr_2 | g9020 | g9020.t25 | cds | g9020.t25.CDS2 | 34691540 | 34691884 |
| chr_2 | g9020 | g9020.t25 | exon | g9020.t25.exon4 | 34692608 | 34692845 |
| chr_2 | g9020 | g9020.t25 | cds | g9020.t25.CDS3 | 34692608 | 34692845 |
| chr_2 | g9020 | g9020.t25 | TSS | g9020.t25 | 34693064 | 34693064 |
Sequences
>g9020.t25 Gene=g9020 Length=1156
ATGATGTCCATTGAATACAAGTGTGAAGAAGATGAGCAGAAGAAGAAATTACGTGAGCTC
ACTAAATCTTTTTGTGGTATTGATAAGCCGTTAAAAAATTACGTGAATCACGTGGAGAGT
TTAAATGAACTTATACGTGAGCTTCACGTTGTCTTTTCTTCGGACTACGTTAATATTGAA
AGAGTAAACCATCTTATGATGGTATATACAAGCAATTATAAGGATTGGAAAAAATTTGTA
ACTTCACCTTGTTTCATCTATCTCTATAGGTATACGCGAAATCTTGTGGATGCAGGCAAT
GATAAGTTTAATTTGATGATTCTTTGCTGGAATGAAGGACAAACTTCGGCAATTCATGAT
CATGCTGATTCACATTGTTTTATGAAAGTTTTAAAAGGAGGATTAACTGAAGTTAAATAT
TTGATGCCAAATCAAAATAATACACAAATTTCACATATGGAACCAAACCTTCCTGCTGAT
ATTGGCATCTATCATCATCCAGAAGAAGAACACCACAATGAAGAACAATTACAAGAAATT
TGCAGAACAACTCTCTATGAGAATCAAGTTTGTTACATCAATGCATCGCGTGATTGAGAT
AATAATTTTAATTTTCTCTTTATTTTTAGTCTCGCTGCACCTTTATTGTCCACCTTTTGA
TGCATGTGGGATCTATAATAAAGCAACTGGAAAGAAAACCAAATGTCCTGTAAGTCACTT
TTTGGAGTAAATTTGGCAAACGTGAAAAAATTCCAGAATGAGCAAGTCAAATGCAGCAAT
ATGTAGCAATGGCAGCAGCATACAAAAATATTAGCAATAAGAATTAATTAAGTAATTCAA
ATGAAAATTATACACTTTTTTAACAATTTTTTTTTGCATTTATTTAAATCTGTGTATTTT
TTTTCTCTTTTTAATGACTCATCATTCTTATAATTATGAGATTAATTAAAAGCTATTATT
TGGCGCAATTTTCACAAAAAATAAAAATTTTTTGATAGAGGAAAATTTTTTGAAGAAAGA
GATAAAAGATATGATAAATAAATAAGAGATTTATATTGTACAATAGATGAATGATAGAGA
GATTTTACACGAATTTATATGTTAAATTATGTTTCTTCTATGTAGCAAATGTAAAAATAG
TGATAGCAAATAAAAT
>g9020.t25 Gene=g9020 Length=198
MMSIEYKCEEDEQKKKLRELTKSFCGIDKPLKNYVNHVESLNELIRELHVVFSSDYVNIE
RVNHLMMVYTSNYKDWKKFVTSPCFIYLYRYTRNLVDAGNDKFNLMILCWNEGQTSAIHD
HADSHCFMKVLKGGLTEVKYLMPNQNNTQISHMEPNLPADIGIYHHPEEEHHNEEQLQEI
CRTTLYENQVCYINASRD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9020.t25 | CDD | cd10548 | cupin_CDO | 91 | 143 | 0 |
| 4 | g9020.t25 | Gene3D | G3DSA:2.60.120.10 | Jelly Rolls | 30 | 198 | 0 |
| 2 | g9020.t25 | PANTHER | PTHR12918 | CYSTEINE DIOXYGENASE | 35 | 195 | 0 |
| 1 | g9020.t25 | Pfam | PF05995 | Cysteine dioxygenase type I | 35 | 153 | 0 |
| 3 | g9020.t25 | SUPERFAMILY | SSF51182 | RmlC-like cupins | 39 | 196 | 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: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.
