General information for g5758.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 4-hydroxyphenylpyruvate dioxygenase.
Parent gene
- The parent gene g5758 is located on chr_2: 11777345..11777988 (+ 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_2 | g5758 | g5758.t4 | TSS | g5758.t4 | 11775252 | 11775252 |
| chr_2 | g5758 | g5758.t4 | isoform | g5758.t4 | 11775323 | 11776595 |
| chr_2 | g5758 | g5758.t4 | exon | g5758.t4.exon1 | 11775323 | 11775325 |
| chr_2 | g5758 | g5758.t4 | cds | g5758.t4.CDS1 | 11775323 | 11775325 |
| chr_2 | g5758 | g5758.t4 | exon | g5758.t4.exon2 | 11775671 | 11775697 |
| chr_2 | g5758 | g5758.t4 | cds | g5758.t4.CDS2 | 11775671 | 11775697 |
| chr_2 | g5758 | g5758.t4 | exon | g5758.t4.exon3 | 11775758 | 11775925 |
| chr_2 | g5758 | g5758.t4 | cds | g5758.t4.CDS3 | 11775758 | 11775925 |
| chr_2 | g5758 | g5758.t4 | exon | g5758.t4.exon4 | 11776002 | 11776217 |
| chr_2 | g5758 | g5758.t4 | cds | g5758.t4.CDS4 | 11776002 | 11776217 |
| chr_2 | g5758 | g5758.t4 | exon | g5758.t4.exon5 | 11776273 | 11776595 |
| chr_2 | g5758 | g5758.t4 | cds | g5758.t4.CDS5 | 11776273 | 11776593 |
| chr_2 | g5758 | g5758.t4 | TTS | g5758.t4 | NA | NA |
Sequences
>g5758.t4 Gene=g5758 Length=737
ATGACTACATACACTGACAAAGGACCAAAACCCGATGGCGGTAAATTTCTCTCCTTCGAT
CACGTTACATTTTGGGTAAGCAATGCCAAACAAGCATCATCTTATTACATAACACGCTTG
GGTTTCGAACCGTTGGCCTATCAAGGTTTAGAAACTGGATCTCGTCAATATGCTAGGCAC
GTCGTCAAACAAAATCAGATTATTTTTGTATTCGTCTCGCCATATGATACTGATAATTTT
GAAGTTGGTGGACATTTAATTAAACATGGTGATGGTGTTAAGGACATTTCTTTTGCTGTC
GAAGATCTTGACATTATTGTAAATCGTGCACGTGATCGTGGTGCAAAAATTGTTAAAGAT
ATTTGGGAAGAAAAAGATGAATTTGGTTCAGTTCGTTTTGCTGTTTTACAAACTTATGGT
GACACAACACATACTTTGATTGATCGCAAAAATTACAAAGGAATTTTCTTGCCTGGTTAT
AAAGAACATTATTCCAAGAATGATCCACTTCTTAAAATTTTGCCAAAGCCAAATTTACAA
TTTATTGATCATATCGTTGGCAATCAACCAGATCGACAAATGGAATCAGTTGCTGAATGG
TATGTTCGCTGTTTAATGTTTCATCGCTTTTGGTCGGTTGATGACAGTCAAATTCACACT
GAATTTTCTGCCTTACGTTCAATTGTTGTTACTAATTATGAAGAGACAATCAAAATGCCC
ATTAATGAGCCAGCATC
>g5758.t4 Gene=g5758 Length=245
MTTYTDKGPKPDGGKFLSFDHVTFWVSNAKQASSYYITRLGFEPLAYQGLETGSRQYARH
VVKQNQIIFVFVSPYDTDNFEVGGHLIKHGDGVKDISFAVEDLDIIVNRARDRGAKIVKD
IWEEKDEFGSVRFAVLQTYGDTTHTLIDRKNYKGIFLPGYKEHYSKNDPLLKILPKPNLQ
FIDHIVGNQPDRQMESVAEWYVRCLMFHRFWSVDDSQIHTEFSALRSIVVTNYEETIKMP
INEPA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g5758.t4 | CDD | cd08342 | HPPD_N_like | 19 | 162 | 0.0000000 |
| 6 | g5758.t4 | Gene3D | G3DSA:3.10.180.10 | 2 | 1 | 175 | 0.0000000 |
| 5 | g5758.t4 | Gene3D | G3DSA:3.10.180.10 | 2 | 176 | 245 | 0.0000000 |
| 2 | g5758.t4 | PANTHER | PTHR11959 | 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE | 1 | 245 | 0.0000000 |
| 3 | g5758.t4 | PANTHER | PTHR11959:SF12 | 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE | 1 | 245 | 0.0000000 |
| 1 | g5758.t4 | Pfam | PF13669 | Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily | 20 | 120 | 0.0000002 |
| 7 | g5758.t4 | ProSiteProfiles | PS51819 | Vicinal oxygen chelate (VOC) domain profile. | 18 | 149 | 25.8070000 |
| 8 | g5758.t4 | ProSiteProfiles | PS51819 | Vicinal oxygen chelate (VOC) domain profile. | 181 | 245 | 7.9680000 |
| 4 | g5758.t4 | SUPERFAMILY | SSF54593 | Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 13 | 244 | 0.0000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5758/g5758.t4; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5758.t4.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0009072 | aromatic amino acid family metabolic process | BP |
| GO:0016701 | oxidoreductase activity, acting on single donors with incorporation of molecular oxygen | MF |
| GO:0003868 | 4-hydroxyphenylpyruvate dioxygenase 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. There were no conditions that were differentially expressed