General information for g9785.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tryptophan 2,3-dioxygenase.
Parent gene
- The parent gene g9785 is located on chr_1: 5201227..5202282 (- 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 | g9785 | g9785.t3 | TTS | g9785.t3 | 5200159 | 5200159 |
| chr_1 | g9785 | g9785.t3 | isoform | g9785.t3 | 5200216 | 5201207 |
| chr_1 | g9785 | g9785.t3 | exon | g9785.t3.exon1 | 5200216 | 5200379 |
| chr_1 | g9785 | g9785.t3 | cds | g9785.t3.CDS1 | 5200322 | 5200379 |
| chr_1 | g9785 | g9785.t3 | exon | g9785.t3.exon2 | 5200450 | 5200543 |
| chr_1 | g9785 | g9785.t3 | cds | g9785.t3.CDS2 | 5200450 | 5200543 |
| chr_1 | g9785 | g9785.t3 | exon | g9785.t3.exon3 | 5200598 | 5201207 |
| chr_1 | g9785 | g9785.t3 | cds | g9785.t3.CDS3 | 5200598 | 5201174 |
| chr_1 | g9785 | g9785.t3 | TSS | g9785.t3 | NA | NA |
Sequences
>g9785.t3 Gene=g9785 Length=868
TTGCTTGTTGATCAAGTTCCAATTCTTGAAACAATGACACCGCTTGATTTTATGGACTTC
AGAGACTATCTTTCACCAGCAAGTGGTTTTCAAAGTCTTCAATTTCGTTTACTTGAAAAT
AAACTTGGTGTAAAAACAGAACATCGCGTTAGATATAATCAAAATTATTCTCATGTTTTT
GGCACTGATGCTGAAGCTATTGAAGCTTTGCAACGTTCTGAACAAGATCCATCATTAAGT
GATTTAGTTCAAAGATGGCTTGAAAGAACACCCGGATTGGAAAAAGACGGTTTTGATTTT
TGGGATAAATTTCAAGCGAGTGTTGAAAAACTATTGAAAGAAAAGGAGGAACAAGCTAAT
AATGAAGAATCAGAATATTTAAAGAATTATCGTCTGATGGATATTCAAAAGCGCAGAGAT
GTTTATAAGACAATTTTTGATCCAAAAGTTCATGAAGCTCTTGTCGCTCGTGGTGAGAGA
AGATTCACCTATAAAGCACTTCAAGGAGCTATGATGATTAGTTTCTATCGTGATGAACCA
CGTTTTTCGCAACCTCACCAACTTCTTCAACTTCTTATGGACATTGATTCTTTGATTACA
AAATGGAGATACAATCATGTCATCATGGTACAAAGAATGATCGGAAGTCAACAATTGGGC
ACTGGGGGAAGTTCTGGTTATCAATATCTTCGATCAACTCTTAGTTTTCATCGATCTTTT
CAATTTGTCAACTTTCTTGATTCCACGTCATTACATTCCTGAATTGACCCTTGAAATGAA
AAATACACTGACTCACTCAAAGAGTGCTAAAACATCAGAATGCATTGATGAAGAAGAAAA
TAATGCAGCATCAAATGGCTTGAAATAA
>g9785.t3 Gene=g9785 Length=242
MTPLDFMDFRDYLSPASGFQSLQFRLLENKLGVKTEHRVRYNQNYSHVFGTDAEAIEALQ
RSEQDPSLSDLVQRWLERTPGLEKDGFDFWDKFQASVEKLLKEKEEQANNEESEYLKNYR
LMDIQKRRDVYKTIFDPKVHEALVARGERRFTYKALQGAMMISFYRDEPRFSQPHQLLQL
LMDIDSLITKWRYNHVIMVQRMIGSQQLGTGGSSGYQYLRSTLSFHRSFQFVNFLDSTSL
HS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g9785.t3 | Coils | Coil | Coil | 94 | 114 | - |
| 2 | g9785.t3 | PANTHER | PTHR10138 | TRYPTOPHAN 2,3-DIOXYGENASE | 1 | 224 | 8.9E-99 |
| 1 | g9785.t3 | Pfam | PF03301 | Tryptophan 2,3-dioxygenase | 1 | 226 | 5.7E-103 |
| 3 | g9785.t3 | SUPERFAMILY | SSF140959 | Indolic compounds 2,3-dioxygenase-like | 1 | 224 | 5.49E-51 |
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:0046872 | metal ion binding | MF |
| GO:0020037 | heme binding | MF |
| GO:0019441 | tryptophan catabolic process to kynurenine | BP |
| GO:0004833 | tryptophan 2,3-dioxygenase activity | MF |
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