General information for g5266.t25
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 3-4-dihydroxyphenylacetaldehyde synthase.
Parent gene
- The parent gene g5266 is located on chr_2: 8314399..8316910 (- 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 | g5266 | g5266.t25 | isoform | g5266.t25 | 8314233 | 8316910 |
| chr_2 | g5266 | g5266.t25 | exon | g5266.t25.exon1 | 8314233 | 8315144 |
| chr_2 | g5266 | g5266.t25 | TTS | g5266.t25 | 8314240 | 8314240 |
| chr_2 | g5266 | g5266.t25 | cds | g5266.t25.CDS1 | 8314399 | 8315109 |
| chr_2 | g5266 | g5266.t25 | exon | g5266.t25.exon2 | 8315315 | 8315734 |
| chr_2 | g5266 | g5266.t25 | exon | g5266.t25.exon3 | 8315811 | 8315830 |
| chr_2 | g5266 | g5266.t25 | exon | g5266.t25.exon4 | 8315902 | 8316116 |
| chr_2 | g5266 | g5266.t25 | exon | g5266.t25.exon5 | 8316728 | 8316910 |
| chr_2 | g5266 | g5266.t25 | TSS | g5266.t25 | 8317285 | 8317285 |
Sequences
>g5266.t25 Gene=g5266 Length=1750
AATGATCAGAAGAAAGTGAAATTAAGATGATGAAATTATGTTAATTTCTTTGTCTGAAAT
TAATCAGTGTCATCATTAAACACAATTAAATCAACAGAATTCTGGTTTTTTTCGCAACTG
TGTTGGTTTAAAGAAGCAAATACACTCAGAAAAATTCATATTTGCATATTAAGAAGAAAG
CAAACCAGTGCTTTCATCAGTTGAACCAGAATATTTACATGATCTACTTCCATCTGAAAT
GCCCGAACAACCTGAAAAATGGCAGGATATTATGGAAGATTTGAAAAATCAAATTCTACC
TGGTTTGACACATTGGCAATCACCACACTTTCATGCTTTTTATCCATCACAATCGTCTTT
TCCTTCAATAGTAGGAGAATTGCTGACAGCAGGAATTGGTGTTGTTGGATTTAGCTGGAT
ATGCAGTCCCGCTGCCACTGAACTCGAAGTGATTGTGATGGATTGGCTTGGAAAGTTTTT
AAATTTGCCGAGTCATTTTCTACCAAGTGGCCAAGGAAATGGAGGTGGTATTATTCAAGG
AAGTGCTAGCGAGTCGATTCTTGTAGCAGTCCTTGCTGCCCGTGAAGAAAAAGTTCGTGA
GATGAAAATTAAACGCCCAGAACTCACAGAGGGAGAAATTCGTTCTAAATTAGTTGGTTA
TGGTTCAATTCATTCGAATAGTGCAATTGAAAAATCAGGATTACTAGCTGCAACTAAAAT
GCGACTTCTCGATGCTGATGAAACATCAATTATGCGTGGAGAAACCGTTGAGAAGGCAAT
TCAAGCTGATCTAGCTGAAGATTTGATTCCGTACATATGTGTCACAACGATTGGAACAGC
GCTGTATTCTGTTTACCAGAGTATGCACATATAATGAAAGGAATTGAGTATGGCGATTCA
ATAAATTTCAATTTACACAAATGGATGCTCGTAAATTTTGACTGTGCAGCAATGTGGATT
AAAGATGCAGGAAAATTAACCCAGTCATTCAATGTAGAGCGTATTTATTTAGATCACAAA
TATCAAGGTGCAAGTAAAGCACCAGATTATCGTCATTGGCAACTCGCACTTGGACGTCGA
TTCCGTTCATTGAGAGTTTGGATTACATTTAGAACTTATGGACAGCAGAAAATTCGAGAA
TGGCTTCGTAAACACATTTCATTAGCAAGTTTATTCTTAGAATATCTTGCAACAGATGAT
CGTTTTGAAGCAACTGGGCAATCACTTGCACTTGCATTTTTCCGCTTGAAAGGAGACGAT
ACATTGACAAGGAAACTTTTAGATCGCATAAATGATCGAAAAAATATTTACATGATTCCA
GCATTCTATCAAAACAAAGTGATTATCAGATTTGTTATTTGTGGTCTCGATCCAGTTGAA
AAAGATATTGAATATGCATGGAATGAAATAAAAACAGTCGCTGATGAGTTGTTAGCAGAA
AATGAAGCTGCAGAAAAGTTGCAAATTAAACTTTCAGAAAATGCAGAAAATGAAATAGAG
ACAGTAAAAGATAAAGTAAACTTTGTTACGGAAAATATCTCTCAAAGCTTCTCAATTTGT
GAGCAAGAGAAAACCGTTCATTAAAAAGCTCAATGATGAAAGCTGCATGAAACTTTTAAA
CAAAAACCTTTTTTATTAATGATGCTGAAAAATTTTATTATTCAATAACTTTATAAATTC
GTGTAAGATTCAATTATAAAATAAAAATTAAAATATTTTTTAGACTTTAAATTGGTCCCA
AGCAAAAATT
>g5266.t25 Gene=g5266 Length=236
MKGIEYGDSINFNLHKWMLVNFDCAAMWIKDAGKLTQSFNVERIYLDHKYQGASKAPDYR
HWQLALGRRFRSLRVWITFRTYGQQKIREWLRKHISLASLFLEYLATDDRFEATGQSLAL
AFFRLKGDDTLTRKLLDRINDRKNIYMIPAFYQNKVIIRFVICGLDPVEKDIEYAWNEIK
TVADELLAENEAAEKLQIKLSENAENEIETVKDKVNFVTENISQSFSICEQEKTVH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g5266.t25 | Coils | Coil | Coil | 183 | 221 | - |
| 7 | g5266.t25 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 92 | 7.1E-29 |
| 6 | g5266.t25 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 93 | 198 | 2.5E-26 |
| 2 | g5266.t25 | PANTHER | PTHR11999 | GROUP II PYRIDOXAL-5-PHOSPHATE DECARBOXYLASE | 1 | 210 | 8.3E-82 |
| 3 | g5266.t25 | PANTHER | PTHR11999:SF60 | 3,4-DIHYDROXYPHENYLACETALDEHYDE SYNTHASE | 1 | 210 | 8.3E-82 |
| 1 | g5266.t25 | Pfam | PF00282 | Pyridoxal-dependent decarboxylase conserved domain | 1 | 125 | 2.4E-31 |
| 5 | g5266.t25 | ProSitePatterns | PS00392 | DDC / GAD / HDC / TyrDC pyridoxal-phosphate attachment site. | 9 | 30 | - |
| 4 | g5266.t25 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 1 | 186 | 7.53E-42 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5266/g5266.t25; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5266.t25.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0019752 | carboxylic acid metabolic process | BP |
| GO:0016831 | carboxy-lyase activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | 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.
