Gene loci information

Transcript annotation

  • This transcript has been annotated as Tryptophan 2,3-dioxygenase.

Parent gene

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.t4 TTS g9785.t4 5200159 5200159
chr_1 g9785 g9785.t4 isoform g9785.t4 5200216 5202187
chr_1 g9785 g9785.t4 exon g9785.t4.exon1 5200216 5200393
chr_1 g9785 g9785.t4 cds g9785.t4.CDS1 5200216 5200393
chr_1 g9785 g9785.t4 exon g9785.t4.exon2 5200450 5200543
chr_1 g9785 g9785.t4 cds g9785.t4.CDS2 5200450 5200543
chr_1 g9785 g9785.t4 exon g9785.t4.exon3 5200598 5201207
chr_1 g9785 g9785.t4 cds g9785.t4.CDS3 5200598 5201174
chr_1 g9785 g9785.t4 exon g9785.t4.exon4 5201836 5201973
chr_1 g9785 g9785.t4 exon g9785.t4.exon5 5202031 5202187
chr_1 g9785 g9785.t4 TSS g9785.t4 5202321 5202321

Sequences

>g9785.t4 Gene=g9785 Length=1177
GATGCTGCACAACAAGGTGAAGTATTGGGAGCAGAAGTTGGTATGCTCTATGGTGAATAT
CTACAATTAGATAAAATTTTATCATCTCAACGTATGCTATCGCATAGTGATAAACATCCA
GTTCATGATGAACATCTTTTTATTGTCACACATCAAGCATACGAGTTGTGGTTCAAACAA
ATAATCTTTGAGGTCGACTCAATTCGCGATTTATTTGATGAAGAGCTAATTAAAGAATCA
AATACACTCGAAATTCTTAAACGTCTAAATCGTATCACACTAATTTTAAATGTGATTGCT
TGTTGATCAAGTTCCAATTCTTGAAACAATGACACCGCTTGATTTTATGGACTTCAGAGA
CTATCTTTCACCAGCAAGTGGTTTTCAAAGTCTTCAATTTCGTTTACTTGAAAATAAACT
TGGTGTAAAAACAGAACATCGCGTTAGATATAATCAAAATTATTCTCATGTTTTTGGCAC
TGATGCTGAAGCTATTGAAGCTTTGCAACGTTCTGAACAAGATCCATCATTAAGTGATTT
AGTTCAAAGATGGCTTGAAAGAACACCCGGATTGGAAAAAGACGGTTTTGATTTTTGGGA
TAAATTTCAAGCGAGTGTTGAAAAACTATTGAAAGAAAAGGAGGAACAAGCTAATAATGA
AGAATCAGAATATTTAAAGAATTATCGTCTGATGGATATTCAAAAGCGCAGAGATGTTTA
TAAGACAATTTTTGATCCAAAAGTTCATGAAGCTCTTGTCGCTCGTGGTGAGAGAAGATT
CACCTATAAAGCACTTCAAGGAGCTATGATGATTAGTTTCTATCGTGATGAACCACGTTT
TTCGCAACCTCACCAACTTCTTCAACTTCTTATGGACATTGATTCTTTGATTACAAAATG
GAGATACAATCATGTCATCATGGTACAAAGAATGATCGGAAGTCAACAATTGGGCACTGG
GGGAAGTTCTGGTTATCAATATCTTCGATCAACTCTTAGCGATCGCTATAAAGTTTTCAT
CGATCTTTTCAATTTGTCAACTTTCTTGATTCCACGTCATTACATTCCTGAATTGACCCT
TGAAATGAAAAATACACTGACTCACTCAAAGAGTGCTAAAACATCAGAATGCATTGATGA
AGAAGAAAATAATGCAGCATCAAATGGCTTGAAATAA

>g9785.t4 Gene=g9785 Length=282
MTPLDFMDFRDYLSPASGFQSLQFRLLENKLGVKTEHRVRYNQNYSHVFGTDAEAIEALQ
RSEQDPSLSDLVQRWLERTPGLEKDGFDFWDKFQASVEKLLKEKEEQANNEESEYLKNYR
LMDIQKRRDVYKTIFDPKVHEALVARGERRFTYKALQGAMMISFYRDEPRFSQPHQLLQL
LMDIDSLITKWRYNHVIMVQRMIGSQQLGTGGSSGYQYLRSTLSDRYKVFIDLFNLSTFL
IPRHYIPELTLEMKNTLTHSKSAKTSECIDEEENNAASNGLK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9785.t4 Coils Coil Coil 94 114 -
6 g9785.t4 Coils Coil Coil 274 282 -
4 g9785.t4 MobiDBLite mobidb-lite consensus disorder prediction 262 282 -
2 g9785.t4 PANTHER PTHR10138 TRYPTOPHAN 2,3-DIOXYGENASE 1 260 1.6E-116
1 g9785.t4 Pfam PF03301 Tryptophan 2,3-dioxygenase 1 240 3.0E-112
3 g9785.t4 SUPERFAMILY SSF140959 Indolic compounds 2,3-dioxygenase-like 1 241 5.3E-54

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