General information for g5758.t1
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.t1 | TSS | g5758.t1 | 11775252 | 11775252 |
| chr_2 | g5758 | g5758.t1 | isoform | g5758.t1 | 11775323 | 11777429 |
| chr_2 | g5758 | g5758.t1 | exon | g5758.t1.exon1 | 11775323 | 11775325 |
| chr_2 | g5758 | g5758.t1 | cds | g5758.t1.CDS1 | 11775323 | 11775325 |
| chr_2 | g5758 | g5758.t1 | exon | g5758.t1.exon2 | 11775671 | 11775697 |
| chr_2 | g5758 | g5758.t1 | cds | g5758.t1.CDS2 | 11775671 | 11775697 |
| chr_2 | g5758 | g5758.t1 | exon | g5758.t1.exon3 | 11775758 | 11775925 |
| chr_2 | g5758 | g5758.t1 | cds | g5758.t1.CDS3 | 11775758 | 11775925 |
| chr_2 | g5758 | g5758.t1 | exon | g5758.t1.exon4 | 11776002 | 11776217 |
| chr_2 | g5758 | g5758.t1 | cds | g5758.t1.CDS4 | 11776002 | 11776217 |
| chr_2 | g5758 | g5758.t1 | exon | g5758.t1.exon5 | 11776273 | 11776932 |
| chr_2 | g5758 | g5758.t1 | cds | g5758.t1.CDS5 | 11776273 | 11776932 |
| chr_2 | g5758 | g5758.t1 | exon | g5758.t1.exon6 | 11777355 | 11777429 |
| chr_2 | g5758 | g5758.t1 | cds | g5758.t1.CDS6 | 11777355 | 11777429 |
| chr_2 | g5758 | g5758.t1 | TTS | g5758.t1 | 11777800 | 11777800 |
Sequences
>g5758.t1 Gene=g5758 Length=1149
ATGACTACATACACTGACAAAGGACCAAAACCCGATGGCGGTAAATTTCTCTCCTTCGAT
CACGTTACATTTTGGGTAAGCAATGCCAAACAAGCATCATCTTATTACATAACACGCTTG
GGTTTCGAACCGTTGGCCTATCAAGGTTTAGAAACTGGATCTCGTCAATATGCTAGGCAC
GTCGTCAAACAAAATCAGATTATTTTTGTATTCGTCTCGCCATATGATACTGATAATTTT
GAAGTTGGTGGACATTTAATTAAACATGGTGATGGTGTTAAGGACATTTCTTTTGCTGTC
GAAGATCTTGACATTATTGTAAATCGTGCACGTGATCGTGGTGCAAAAATTGTTAAAGAT
ATTTGGGAAGAAAAAGATGAATTTGGTTCAGTTCGTTTTGCTGTTTTACAAACTTATGGT
GACACAACACATACTTTGATTGATCGCAAAAATTACAAAGGAATTTTCTTGCCTGGTTAT
AAAGAACATTATTCCAAGAATGATCCACTTCTTAAAATTTTGCCAAAGCCAAATTTACAA
TTTATTGATCATATCGTTGGCAATCAACCAGATCGACAAATGGAATCAGTTGCTGAATGG
TATGTTCGCTGTTTAATGTTTCATCGCTTTTGGTCGGTTGATGACAGTCAAATTCACACT
GAATTTTCTGCCTTACGTTCAATTGTTGTTACTAATTATGAAGAGACAATCAAAATGCCC
ATTAATGAGCCAGCATCAGGAAAGAAAAAATCACAAATTCAAGAATATGTGGACTATTAT
GCCAGTGGTGGTGTTCAACATATTGCATTGAATACAAACGATATTATCGATACAATTACA
AAACTTAAGGAACGTGGACAAGATTTCTTAGTTGTTCCAGATACTTATTATGATATGCTT
GAAAAACGATTGGCAGCTGACAATTTCAAAATCAAAGAAGATTTGGCAGTGTTGAAAAAA
TTGAAAATTTTAATTGATTATGATCAAACTGGATATTTGCTTCAAATTTTTACTAAAAAC
ATGCAAGATCGTCCAACACTTTTCTTGGAAGTTATTCAACGTCGCAATCATAATGGTTTC
GGAGCAGGAAATTTCAAAGCCCTTTTTGAAGCAATCGAATTGGATCAAGCACAACGTGGC
AATTTGTAA
>g5758.t1 Gene=g5758 Length=382
MTTYTDKGPKPDGGKFLSFDHVTFWVSNAKQASSYYITRLGFEPLAYQGLETGSRQYARH
VVKQNQIIFVFVSPYDTDNFEVGGHLIKHGDGVKDISFAVEDLDIIVNRARDRGAKIVKD
IWEEKDEFGSVRFAVLQTYGDTTHTLIDRKNYKGIFLPGYKEHYSKNDPLLKILPKPNLQ
FIDHIVGNQPDRQMESVAEWYVRCLMFHRFWSVDDSQIHTEFSALRSIVVTNYEETIKMP
INEPASGKKKSQIQEYVDYYASGGVQHIALNTNDIIDTITKLKERGQDFLVVPDTYYDML
EKRLAADNFKIKEDLAVLKKLKILIDYDQTGYLLQIFTKNMQDRPTLFLEVIQRRNHNGF
GAGNFKALFEAIELDQAQRGNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g5758.t1 | CDD | cd08342 | HPPD_N_like | 19 | 162 | 0.0000000 |
| 9 | g5758.t1 | CDD | cd07250 | HPPD_C_like | 179 | 373 | 0.0000000 |
| 7 | g5758.t1 | Gene3D | G3DSA:3.10.180.10 | 2 | 1 | 175 | 0.0000000 |
| 6 | g5758.t1 | Gene3D | G3DSA:3.10.180.10 | 2 | 176 | 382 | 0.0000000 |
| 3 | g5758.t1 | PANTHER | PTHR11959 | 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE | 1 | 382 | 0.0000000 |
| 4 | g5758.t1 | PANTHER | PTHR11959:SF12 | 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE | 1 | 382 | 0.0000000 |
| 8 | g5758.t1 | PIRSF | PIRSF009283 | 4HPP_dioxygenase | 6 | 382 | 0.0000000 |
| 2 | g5758.t1 | Pfam | PF13669 | Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily | 20 | 120 | 0.0000007 |
| 1 | g5758.t1 | Pfam | PF00903 | Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily | 182 | 303 | 0.0000000 |
| 11 | g5758.t1 | ProSiteProfiles | PS51819 | Vicinal oxygen chelate (VOC) domain profile. | 18 | 149 | 25.8070000 |
| 12 | g5758.t1 | ProSiteProfiles | PS51819 | Vicinal oxygen chelate (VOC) domain profile. | 181 | 339 | 20.0970000 |
| 5 | g5758.t1 | SUPERFAMILY | SSF54593 | Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 14 | 369 | 0.0000000 |
| 13 | g5758.t1 | TIGRFAM | TIGR01263 | 4HPPD: 4-hydroxyphenylpyruvate dioxygenase | 18 | 382 | 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.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5758.t1.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 transcript has been annotated with K00457 (4-hydroxyphenylpyruvate 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