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.t7 TTS g9785.t7 5200159 5200159
chr_1 g9785 g9785.t7 isoform g9785.t7 5200602 5202282
chr_1 g9785 g9785.t7 exon g9785.t7.exon1 5200602 5201207
chr_1 g9785 g9785.t7 cds g9785.t7.CDS1 5200602 5201207
chr_1 g9785 g9785.t7 exon g9785.t7.exon2 5201840 5201973
chr_1 g9785 g9785.t7 cds g9785.t7.CDS2 5201840 5201973
chr_1 g9785 g9785.t7 exon g9785.t7.exon3 5202031 5202191
chr_1 g9785 g9785.t7 cds g9785.t7.CDS3 5202031 5202191
chr_1 g9785 g9785.t7 exon g9785.t7.exon4 5202254 5202282
chr_1 g9785 g9785.t7 cds g9785.t7.CDS4 5202254 5202282
chr_1 g9785 g9785.t7 TSS g9785.t7 5202321 5202321

Sequences

>g9785.t7 Gene=g9785 Length=930
ATGAGTTGTCCTATTGGGAATTCGAATGGGCAAGATGCTGCACAACAAGGTGAAGTATTG
GGAGCAGAAGTTGGTATGCTCTATGGTGAATATCTACAATTAGATAAAATTTTATCATCT
CAACGTATGCTATCGCATAGTGATAAACATCCAGTTCATGATGAACATCTTTTTATTGTC
ACACATCAAGCATACGAGTTGTGGTTCAAACAAATAATCTTTGAGGTCGACTCAATTCGC
GATTTATTTGATGAAGAGCTAATTAAAGAATCAAATACACTCGAAATTCTTAAACGTCTA
AATCGTATCACACTAATTTTAAATTTGCTTGTTGATCAAGTTCCAATTCTTGAAACAATG
ACACCGCTTGATTTTATGGACTTCAGAGACTATCTTTCACCAGCAAGTGGTTTTCAAAGT
CTTCAATTTCGTTTACTTGAAAATAAACTTGGTGTAAAAACAGAACATCGCGTTAGATAT
AATCAAAATTATTCTCATGTTTTTGGCACTGATGCTGAAGCTATTGAAGCTTTGCAACGT
TCTGAACAAGATCCATCATTAAGTGATTTAGTTCAAAGATGGCTTGAAAGAACACCCGGA
TTGGAAAAAGACGGTTTTGATTTTTGGGATAAATTTCAAGCGAGTGTTGAAAAACTATTG
AAAGAAAAGGAGGAACAAGCTAATAATGAAGAATCAGAATATTTAAAGAATTATCGTCTG
ATGGATATTCAAAAGCGCAGAGATGTTTATAAGACAATTTTTGATCCAAAAGTTCATGAA
GCTCTTGTCGCTCGTGGTGAGAGAAGATTCACCTATAAAGCACTTCAAGGAGCTATGATG
ATTAGTTTCTATCGTGATGAACCACGTTTTTCGCAACCTCACCAACTTCTTCAACTTCTT
ATGGACATTGATTCTTTGATTACAAAATGG

>g9785.t7 Gene=g9785 Length=310
MSCPIGNSNGQDAAQQGEVLGAEVGMLYGEYLQLDKILSSQRMLSHSDKHPVHDEHLFIV
THQAYELWFKQIIFEVDSIRDLFDEELIKESNTLEILKRLNRITLILNLLVDQVPILETM
TPLDFMDFRDYLSPASGFQSLQFRLLENKLGVKTEHRVRYNQNYSHVFGTDAEAIEALQR
SEQDPSLSDLVQRWLERTPGLEKDGFDFWDKFQASVEKLLKEKEEQANNEESEYLKNYRL
MDIQKRRDVYKTIFDPKVHEALVARGERRFTYKALQGAMMISFYRDEPRFSQPHQLLQLL
MDIDSLITKW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
4 g9785.t7 Coils Coil Coil 213 233 -
2 g9785.t7 PANTHER PTHR10138 TRYPTOPHAN 2,3-DIOXYGENASE 9 310 1.2E-128
1 g9785.t7 Pfam PF03301 Tryptophan 2,3-dioxygenase 13 310 1.7E-128
3 g9785.t7 SUPERFAMILY SSF140959 Indolic compounds 2,3-dioxygenase-like 28 310 4.19E-66

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