General information for g2814.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protoporphyrinogen oxidase.
Parent gene
- The parent gene g2814 is located on chr_3: 20424266..20434420 (+ 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_3 | g2814 | g2814.t2 | TSS | g2814.t2 | 20422647 | 20422647 |
| chr_3 | g2814 | g2814.t2 | isoform | g2814.t2 | 20423438 | 20424301 |
| chr_3 | g2814 | g2814.t2 | exon | g2814.t2.exon1 | 20423438 | 20424301 |
| chr_3 | g2814 | g2814.t2 | cds | g2814.t2.CDS1 | 20423547 | 20424266 |
| chr_3 | g2814 | g2814.t2 | TTS | g2814.t2 | 20424308 | 20424308 |
Sequences
>g2814.t2 Gene=g2814 Length=864
AAAAGGAATTTTCAAGTCTAGAAAAGAGAAAGTACAAGATGCAAATGCTGTTACTGCTAA
TACTGAATTCACTAAAAGAGCAAAAATTGAAGGATGGTCTATTTATAGAATGCAAGACGG
AGTTGAAATAATTCCAAAAAAGATAGTTGAACATTTGCAAAATAATGAAAATGTTGAATT
AAATTTAAATTCAACATGTGAGCGAATCACATTTAAAAATGATGAAGTTCATATATTGAT
AAATGGCAACACTCAGATTTCAAAGCATTTAATATCGACATTACCCAGTTTCACACTTGG
AAATTTGCTTGAGCATCAACATCCAATTTTGGCGAAAGAATTGAAATCCATTCAATATGT
GGATGTAGCTGTTATAAACCTATTATACAATAATGAAGATCTATTGAAACAAAAAGGATT
TGGTGTTTTGGTTGCACCTTCTGAAAACCTCGGTGTTTTGGGAGTAATTTTTGATAGTTG
TATTGTTGATTCAAAAAATAACACCGTTTTAACTGTTATGAGCGGTGGAAAATGGTTTGA
TAAACATTACGGAAAGGATTCTTCAATTCAGAATATTGAAAAAGTTGCGCTTGAAAATAT
TTCAAAAATTCTAGACATACATGAAAAACCAGACGTTTGTCTGACACATTTGAATAGACA
GTGCATTCCTCAATATATTGTTGGTCATCATGCAAGAATTGAAAGAATACGAAAATATAT
TGCTGAAAATAAATTGTCATTGTCTCTAGGTGGAGCAGCATCGGACGGTGTTGGTGTGAA
CGATGTCATTTTGAGTAGTAAAAGAATTGCAGAGCAACTGGTATTGTAAAAATTTTTGAG
AAATAAATTCATTTTTATTGTAAT
>g2814.t2 Gene=g2814 Length=239
MQDGVEIIPKKIVEHLQNNENVELNLNSTCERITFKNDEVHILINGNTQISKHLISTLPS
FTLGNLLEHQHPILAKELKSIQYVDVAVINLLYNNEDLLKQKGFGVLVAPSENLGVLGVI
FDSCIVDSKNNTVLTVMSGGKWFDKHYGKDSSIQNIEKVALENISKILDIHEKPDVCLTH
LNRQCIPQYIVGHHARIERIRKYIAENKLSLSLGGAASDGVGVNDVILSSKRIAEQLVL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g2814.t2 | Gene3D | G3DSA:3.50.50.60 | - | 1 | 239 | 0e+00 |
| 2 | g2814.t2 | PANTHER | PTHR42923 | PROTOPORPHYRINOGEN OXIDASE | 3 | 238 | 0e+00 |
| 3 | g2814.t2 | PANTHER | PTHR42923:SF3 | PROTOPORPHYRINOGEN OXIDASE | 3 | 238 | 0e+00 |
| 1 | g2814.t2 | Pfam | PF01593 | Flavin containing amine oxidoreductase | 10 | 237 | 0e+00 |
| 5 | g2814.t2 | SUPERFAMILY | SSF51905 | FAD/NAD(P)-binding domain | 5 | 237 | 1e-07 |
| 4 | g2814.t2 | SUPERFAMILY | SSF54373 | FAD-linked reductases, C-terminal domain | 82 | 188 | 0e+00 |
| 7 | g2814.t2 | TIGRFAM | TIGR00562 | proto_IX_ox: protoporphyrinogen oxidase | 2 | 237 | 0e+00 |
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:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
| GO:0006779 | porphyrin-containing compound biosynthetic process | BP |
| GO:0004729 | oxygen-dependent protoporphyrinogen oxidase 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.
