Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Tryptophan 5-hydroxylase 2.

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_2 g6793 g6793.t4 isoform g6793.t4 18722558 18724746
chr_2 g6793 g6793.t4 exon g6793.t4.exon1 18722558 18722761
chr_2 g6793 g6793.t4 exon g6793.t4.exon2 18723704 18724138
chr_2 g6793 g6793.t4 cds g6793.t4.CDS1 18724011 18724138
chr_2 g6793 g6793.t4 exon g6793.t4.exon3 18724371 18724746
chr_2 g6793 g6793.t4 cds g6793.t4.CDS2 18724371 18724635
chr_2 g6793 g6793.t4 TTS g6793.t4 18724903 18724903
chr_2 g6793 g6793.t4 TSS g6793.t4 NA NA

Sequences

>g6793.t4 Gene=g6793 Length=1015
GGTAAATAATTAGATTTTATGCCAATTTATGCTTGCATTCAACTTTATTTAAATTAAATT
ATGTCATATGTCTCGCTTTTTCTTTATTTTTTCTCACACTTTAAAAGGGGCGTCGTTTTT
CGCGAACTGCATAAACTTTATGTTAAGCATGCTGTTCCTGAATATATGGAGAATTGGCCT
CAACTTGTGAAATATTGCGGATATAGAAGACAATTTGCCACAACTTCAAGACATTAACGT
TTTCTTGAAACGAAAGACAGGATTTCAAGTGAGACCTGTTGCTGGATATCTTTCTCCTCG
TGACTTTTTGTCTGGCTTAGCATTTCGCGTATTCCATTGCACTCAATATATTCGACACTC
TTCAGATCCATTTTATACACCGGGTAAGTATTTCTAGTTAATTGTTTTATTATGCATTTA
AATCTGCTCTCATTAATTACTGACTTAAAATTTTCTTGAAAAATAATTATACTTTACAGA
GCCCGATTGCTGTCATGAATTACTCGGTCATATGCCTCTACTCGCAAATCCATCTTTTGC
ACAATTCTCGCAAGAAATCGGACTAGCTTCATTAGGAGCAAGTGATGAAGATGTCTCAAA
ATTAGCCACAGTATATCATAAAACAGTTTCTGAAAAAATTTTTGAGGAAGCAAAGGAGAA
GCTGAGAGATTTTGCTTGTAGCATTCAACGGCCATTCATGGTAAGATATAATCCATACAC
CCAATCAGTTGAAGTACTTAGCAATGCAAAGAAGATTACTGCGGTTGTGAGTGAATTGAG
AGGAGACTTATCAATTGTTTCGACAGCTTTGAAAAAAATATCTGCTTTGGACGAGACTTT
AGATGTCGATTCGCTATCAAACATGCTATTGCAAGGAATTCAAGTAAAGAATTTCAATAA
TTAATAAATAAAATATTAAAGTTTATCGGTAAAAAAAATTACTTAATAATTTTAGATCAA
TCCAGATAAATCACCGGTGTCAGAAGGATCTGACAATTCTCAAAAAATTCATTAA

>g6793.t4 Gene=g6793 Length=130
MPLLANPSFAQFSQEIGLASLGASDEDVSKLATVYHKTVSEKIFEEAKEKLRDFACSIQR
PFMVRYNPYTQSVEVLSNAKKITAVVSELRGDLSIVSTALKKISALDETLDVDSLSNMLL
QGIQVKNFNN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g6793.t4 Gene3D G3DSA:1.10.800.10 Phenylalanine Hydroxylase 1 40 0.000
9 g6793.t4 Gene3D G3DSA:1.10.800.10 Phenylalanine Hydroxylase 41 108 0.000
3 g6793.t4 PANTHER PTHR11473:SF37 GH12537P 1 39 0.000
5 g6793.t4 PANTHER PTHR11473 AROMATIC AMINO ACID HYDROXYLASE 1 39 0.000
4 g6793.t4 PANTHER PTHR11473:SF37 GH12537P 43 105 0.000
6 g6793.t4 PANTHER PTHR11473 AROMATIC AMINO ACID HYDROXYLASE 43 105 0.000
1 g6793.t4 Pfam PF00351 Biopterin-dependent aromatic amino acid hydroxylase 1 39 0.000
2 g6793.t4 Pfam PF00351 Biopterin-dependent aromatic amino acid hydroxylase 43 101 0.000
10 g6793.t4 ProSiteProfiles PS51410 Biopterin-dependent aromatic amino acid hydroxylase family profile. 1 130 13.864
7 g6793.t4 SUPERFAMILY SSF56534 Aromatic aminoacid monoxygenases, catalytic and oligomerization domains 1 103 0.000

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:0009072 aromatic amino acid family metabolic process BP
GO:0005506 iron ion binding MF
GO:0016714 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen MF
GO:0004497 monooxygenase activity 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.

Raw TPM values