General information for g7608.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Peroxiredoxin-4.
Parent gene
- The parent gene g7608 is located on chr_2: 24910250..24911301 (- 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 | g7608 | g7608.t17 | TTS | g7608.t17 | 24908670 | 24908670 |
| chr_2 | g7608 | g7608.t17 | isoform | g7608.t17 | 24908768 | 24911301 |
| chr_2 | g7608 | g7608.t17 | exon | g7608.t17.exon1 | 24908768 | 24908853 |
| chr_2 | g7608 | g7608.t17 | cds | g7608.t17.CDS1 | 24908768 | 24908853 |
| chr_2 | g7608 | g7608.t17 | exon | g7608.t17.exon2 | 24910238 | 24910599 |
| chr_2 | g7608 | g7608.t17 | cds | g7608.t17.CDS2 | 24910238 | 24910599 |
| chr_2 | g7608 | g7608.t17 | exon | g7608.t17.exon3 | 24910658 | 24910850 |
| chr_2 | g7608 | g7608.t17 | cds | g7608.t17.CDS3 | 24910658 | 24910850 |
| chr_2 | g7608 | g7608.t17 | exon | g7608.t17.exon4 | 24910934 | 24911032 |
| chr_2 | g7608 | g7608.t17 | cds | g7608.t17.CDS4 | 24910934 | 24911021 |
| chr_2 | g7608 | g7608.t17 | exon | g7608.t17.exon5 | 24911181 | 24911301 |
| chr_2 | g7608 | g7608.t17 | TSS | g7608.t17 | 24911300 | 24911300 |
Sequences
>g7608.t17 Gene=g7608 Length=861
CAGTGTATTTGTGAGATTTATAAACCAAATTTAGTCTCTCATTAGAAATAGAAATTTACT
AGAAATAAGCATTGATTTATATAGAAAAATCGTTTAAACAGCTACCTCAATAAAAAAGTA
ATTGGCGCAAAAATGCTGAAGCATTTTGTTATTTTCTCCTTCGTACTCTTTGGATTAGCT
TTTGCAAATGACGATGGTTCATGCTTTGCAGCCCCAAAAGATGTGTACCCAACTGATAAA
AGTTCTAATAAAATTGAACACAGTTTGCAATATACTAAGGCAGTGATCTCAAAGCCTGCA
CCTCAATTTTCTGGCACAGCTGTTATGAATGGAGAATTTAAAACAATAAGTTTGAATGAT
TATCTTGGAAAATATGTAGTTTTCTTCTTCTATCCTTTGGATTTCACATTTGTATGCCCA
ACAGAAATTTTGGCATTTAGCGATAGAATTGATGAATTTAAAAAGATTAACACGGAAGTT
ATTGCTGCTTCAGTTGATTCTCATTTTACACATCTATCATGGACAAAGACACCAAGAAAA
GAAGGTGGTTTAGGAAATGTGAAAATTCCTTTGCTGAGCGATTTATCGCATAAAATATCT
AAAGATTATGGAGTTTATTTGGAGGATCTTGGCCATACACTTAGAGGACTTTTCATTATT
GATGCAAAAGGTGTTTTACGTCAGATTACAATGAATGATTTGCCAGTTGGACGTAGTGTC
GATGAAACTCTTCGTTTGGTACAAGCTTTTCAATATACTGATACTCATGGTGAAGTGTGT
CCTAGTGGCTGGATGCCGGGATCTAGAACCATCATCCCTGATCCTGAGGAGAAGCTAAAA
TACTTTGAGAAAGAGTTATGA
>g7608.t17 Gene=g7608 Length=242
MLKHFVIFSFVLFGLAFANDDGSCFAAPKDVYPTDKSSNKIEHSLQYTKAVISKPAPQFS
GTAVMNGEFKTISLNDYLGKYVVFFFYPLDFTFVCPTEILAFSDRIDEFKKINTEVIAAS
VDSHFTHLSWTKTPRKEGGLGNVKIPLLSDLSHKISKDYGVYLEDLGHTLRGLFIIDAKG
VLRQITMNDLPVGRSVDETLRLVQAFQYTDTHGEVCPSGWMPGSRTIIPDPEEKLKYFEK
EL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g7608.t17 | CDD | cd03015 | PRX_Typ2cys | 52 | 223 | 1.11804E-113 |
| 8 | g7608.t17 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 46 | 242 | 1.4E-90 |
| 3 | g7608.t17 | PANTHER | PTHR10681 | THIOREDOXIN PEROXIDASE | 24 | 241 | 5.0E-125 |
| 4 | g7608.t17 | PANTHER | PTHR10681:SF157 | PEROXIREDOXIN-4 | 24 | 241 | 5.0E-125 |
| 2 | g7608.t17 | Pfam | PF00578 | AhpC/TSA family | 52 | 184 | 2.2E-36 |
| 1 | g7608.t17 | Pfam | PF10417 | C-terminal domain of 1-Cys peroxiredoxin | 205 | 233 | 1.2E-10 |
| 10 | g7608.t17 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 26 | - |
| 11 | g7608.t17 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 12 | g7608.t17 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 13 | g7608.t17 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 26 | - |
| 9 | g7608.t17 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 242 | - |
| 16 | g7608.t17 | ProSiteProfiles | PS51352 | Thioredoxin domain profile. | 50 | 208 | 17.029 |
| 5 | g7608.t17 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 52 | 239 | 2.14E-67 |
| 7 | g7608.t17 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 15 | g7608.t17 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 6 | g7608.t17 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 26 | - |
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 K03386 (peroxiredoxin 2/4)
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.
