General information for g9785.t1
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.t1 | TTS | g9785.t1 | 5200159 | 5200159 |
| chr_1 | g9785 | g9785.t1 | isoform | g9785.t1 | 5200216 | 5202282 |
| chr_1 | g9785 | g9785.t1 | exon | g9785.t1.exon1 | 5200216 | 5200393 |
| chr_1 | g9785 | g9785.t1 | cds | g9785.t1.CDS1 | 5200216 | 5200393 |
| chr_1 | g9785 | g9785.t1 | exon | g9785.t1.exon2 | 5200450 | 5200543 |
| chr_1 | g9785 | g9785.t1 | cds | g9785.t1.CDS2 | 5200450 | 5200543 |
| chr_1 | g9785 | g9785.t1 | exon | g9785.t1.exon3 | 5200598 | 5201207 |
| chr_1 | g9785 | g9785.t1 | cds | g9785.t1.CDS3 | 5200598 | 5201207 |
| chr_1 | g9785 | g9785.t1 | exon | g9785.t1.exon4 | 5201840 | 5201973 |
| chr_1 | g9785 | g9785.t1 | cds | g9785.t1.CDS4 | 5201840 | 5201973 |
| chr_1 | g9785 | g9785.t1 | exon | g9785.t1.exon5 | 5202031 | 5202191 |
| chr_1 | g9785 | g9785.t1 | cds | g9785.t1.CDS5 | 5202031 | 5202191 |
| chr_1 | g9785 | g9785.t1 | exon | g9785.t1.exon6 | 5202254 | 5202282 |
| chr_1 | g9785 | g9785.t1 | cds | g9785.t1.CDS6 | 5202254 | 5202282 |
| chr_1 | g9785 | g9785.t1 | TSS | g9785.t1 | 5202321 | 5202321 |
Sequences
>g9785.t1 Gene=g9785 Length=1206
ATGAGTTGTCCTATTGGGAATTCGAATGGGCAAGATGCTGCACAACAAGGTGAAGTATTG
GGAGCAGAAGTTGGTATGCTCTATGGTGAATATCTACAATTAGATAAAATTTTATCATCT
CAACGTATGCTATCGCATAGTGATAAACATCCAGTTCATGATGAACATCTTTTTATTGTC
ACACATCAAGCATACGAGTTGTGGTTCAAACAAATAATCTTTGAGGTCGACTCAATTCGC
GATTTATTTGATGAAGAGCTAATTAAAGAATCAAATACACTCGAAATTCTTAAACGTCTA
AATCGTATCACACTAATTTTAAATTTGCTTGTTGATCAAGTTCCAATTCTTGAAACAATG
ACACCGCTTGATTTTATGGACTTCAGAGACTATCTTTCACCAGCAAGTGGTTTTCAAAGT
CTTCAATTTCGTTTACTTGAAAATAAACTTGGTGTAAAAACAGAACATCGCGTTAGATAT
AATCAAAATTATTCTCATGTTTTTGGCACTGATGCTGAAGCTATTGAAGCTTTGCAACGT
TCTGAACAAGATCCATCATTAAGTGATTTAGTTCAAAGATGGCTTGAAAGAACACCCGGA
TTGGAAAAAGACGGTTTTGATTTTTGGGATAAATTTCAAGCGAGTGTTGAAAAACTATTG
AAAGAAAAGGAGGAACAAGCTAATAATGAAGAATCAGAATATTTAAAGAATTATCGTCTG
ATGGATATTCAAAAGCGCAGAGATGTTTATAAGACAATTTTTGATCCAAAAGTTCATGAA
GCTCTTGTCGCTCGTGGTGAGAGAAGATTCACCTATAAAGCACTTCAAGGAGCTATGATG
ATTAGTTTCTATCGTGATGAACCACGTTTTTCGCAACCTCACCAACTTCTTCAACTTCTT
ATGGACATTGATTCTTTGATTACAAAATGGAGATACAATCATGTCATCATGGTACAAAGA
ATGATCGGAAGTCAACAATTGGGCACTGGGGGAAGTTCTGGTTATCAATATCTTCGATCA
ACTCTTAGCGATCGCTATAAAGTTTTCATCGATCTTTTCAATTTGTCAACTTTCTTGATT
CCACGTCATTACATTCCTGAATTGACCCTTGAAATGAAAAATACACTGACTCACTCAAAG
AGTGCTAAAACATCAGAATGCATTGATGAAGAAGAAAATAATGCAGCATCAAATGGCTTG
AAATAA
>g9785.t1 Gene=g9785 Length=401
MSCPIGNSNGQDAAQQGEVLGAEVGMLYGEYLQLDKILSSQRMLSHSDKHPVHDEHLFIV
THQAYELWFKQIIFEVDSIRDLFDEELIKESNTLEILKRLNRITLILNLLVDQVPILETM
TPLDFMDFRDYLSPASGFQSLQFRLLENKLGVKTEHRVRYNQNYSHVFGTDAEAIEALQR
SEQDPSLSDLVQRWLERTPGLEKDGFDFWDKFQASVEKLLKEKEEQANNEESEYLKNYRL
MDIQKRRDVYKTIFDPKVHEALVARGERRFTYKALQGAMMISFYRDEPRFSQPHQLLQLL
MDIDSLITKWRYNHVIMVQRMIGSQQLGTGGSSGYQYLRSTLSDRYKVFIDLFNLSTFLI
PRHYIPELTLEMKNTLTHSKSAKTSECIDEEENNAASNGLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g9785.t1 | Coils | Coil | Coil | 213 | 233 | - |
| 3 | g9785.t1 | Hamap | MF_01972 | Tryptophan 2,3-dioxygenase [kynA]. | 21 | 359 | 37.282455 |
| 5 | g9785.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 381 | 401 | - |
| 2 | g9785.t1 | PANTHER | PTHR10138 | TRYPTOPHAN 2,3-DIOXYGENASE | 9 | 379 | 6.1E-168 |
| 1 | g9785.t1 | Pfam | PF03301 | Tryptophan 2,3-dioxygenase | 13 | 359 | 9.4E-161 |
| 4 | g9785.t1 | SUPERFAMILY | SSF140959 | Indolic compounds 2,3-dioxygenase-like | 28 | 360 | 1.57E-85 |
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 transcript has been annotated with K00453 (tryptophan 2,3-dioxygenase)
Pathway
- This transcript belongs to the following pathways
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