General information for g4792.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxiredoxin-6.
Parent gene
- The parent gene g4792 is located on chr_2: 4994120..4996006 (+ 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 | g4792 | g4792.t1 | TSS | g4792.t1 | 4993413 | 4993413 |
| chr_2 | g4792 | g4792.t1 | isoform | g4792.t1 | 4993455 | 4994120 |
| chr_2 | g4792 | g4792.t1 | exon | g4792.t1.exon1 | 4993455 | 4994120 |
| chr_2 | g4792 | g4792.t1 | cds | g4792.t1.CDS1 | 4993455 | 4994120 |
| chr_2 | g4792 | g4792.t1 | TTS | g4792.t1 | 4994241 | 4994241 |
Sequences
>g4792.t1 Gene=g4792 Length=666
ATGAGGCTCAACGATATCGTCGAAAATTTTGATGCTGTAACAACCAAGGGAAATTTCAAA
TTCTATGATTTTGCTGGAGATTCTTGGATAGTTCTCTTTTCACATCCTGCTGATTTTACA
CCGGTTTGTTCGACAGAACTAGGCCGAATTGCTGTGCATCAATCAGAATTCAAAAAACGT
AATGTTAAAATTATTGCACATTCAATTGATCCACTTGACACACATGTTGAATGGGTAAAT
GACATTTGTAATTATTGTCAAGACATTTGCGGTGAATTTCCTTTTCCAATTATTGCGGAT
CCAACAAGAGAATTAGCTGTAAAATTTGGAATGCTTAATTCTGGTCAAAATATCGATCCA
GAAACAGCAAAAACTGTTCGTGCACTATTTATCATAAGTCCCGATAAGCGAGTTCGATTG
ATTCAAATTTATCCAGCAAGTACTGGACGAAATGTTGATGAAATTTTAAGATGCATTGAC
AGCTTGCAATTGACTGATCGCTTAAAAATTGTCGCTACGCCTGCTAATTGGGTTCCTGGT
GCTCCAGTAATGATTTTGCCTGATGCCGATGAGAAAAAAATCAAGGAAATGTTTGGCAAT
GATTATGAAGTCACAAAATTGCCATCAAAACGTGTTTATATAAGAACAACGACAAATTAC
AAATAA
>g4792.t1 Gene=g4792 Length=221
MRLNDIVENFDAVTTKGNFKFYDFAGDSWIVLFSHPADFTPVCSTELGRIAVHQSEFKKR
NVKIIAHSIDPLDTHVEWVNDICNYCQDICGEFPFPIIADPTRELAVKFGMLNSGQNIDP
ETAKTVRALFIISPDKRVRLIQIYPASTGRNVDEILRCIDSLQLTDRLKIVATPANWVPG
APVMILPDADEKKIKEMFGNDYEVTKLPSKRVYIRTTTNYK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4792.t1 | CDD | cd03016 | PRX_1cys | 3 | 217 | 0.000 |
| 7 | g4792.t1 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 1 | 150 | 0.000 |
| 6 | g4792.t1 | Gene3D | G3DSA:3.30.1020.10 | Antioxidant | 151 | 219 | 0.000 |
| 3 | g4792.t1 | PANTHER | PTHR43503 | MCG48959-RELATED | 1 | 220 | 0.000 |
| 4 | g4792.t1 | PANTHER | PTHR43503:SF3 | DI01187P-RELATED | 1 | 220 | 0.000 |
| 9 | g4792.t1 | PIRSF | PIRSF000239 | AHPC | 1 | 219 | 0.000 |
| 2 | g4792.t1 | Pfam | PF00578 | AhpC/TSA family | 5 | 140 | 0.000 |
| 1 | g4792.t1 | Pfam | PF10417 | C-terminal domain of 1-Cys peroxiredoxin | 161 | 199 | 0.000 |
| 8 | g4792.t1 | ProSiteProfiles | PS51352 | Thioredoxin domain profile. | 1 | 164 | 14.719 |
| 5 | g4792.t1 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 2 | 217 | 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:0016209 | antioxidant activity | MF |
| GO:0055114 | NA | NA |
| GO:0051920 | peroxiredoxin activity | MF |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00430 (peroxidase)
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.
