General information for g13509.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Phospholipid hydroperoxide glutathione peroxidase.
Parent gene
- The parent gene g13509 is located on chr_1: 30583916..30584496 (+ 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_1 | g13509 | g13509.t1 | isoform | g13509.t1 | 30575255 | 30584221 |
| chr_1 | g13509 | g13509.t1 | exon | g13509.t1.exon1 | 30575255 | 30575331 |
| chr_1 | g13509 | g13509.t1 | cds | g13509.t1.CDS1 | 30575255 | 30575331 |
| chr_1 | g13509 | g13509.t1 | exon | g13509.t1.exon2 | 30579764 | 30579975 |
| chr_1 | g13509 | g13509.t1 | cds | g13509.t1.CDS2 | 30579764 | 30579975 |
| chr_1 | g13509 | g13509.t1 | exon | g13509.t1.exon3 | 30582937 | 30583237 |
| chr_1 | g13509 | g13509.t1 | cds | g13509.t1.CDS3 | 30582937 | 30583237 |
| chr_1 | g13509 | g13509.t1 | exon | g13509.t1.exon4 | 30583954 | 30584221 |
| chr_1 | g13509 | g13509.t1 | cds | g13509.t1.CDS4 | 30583954 | 30584221 |
| chr_1 | g13509 | g13509.t1 | TTS | g13509.t1 | 30584495 | 30584495 |
| chr_1 | g13509 | g13509.t1 | TSS | g13509.t1 | NA | NA |
Sequences
>g13509.t1 Gene=g13509 Length=858
ATGTTGCTCCTTTCATTTCCAAAATCAATCGGATTAATCGGCTCTGTCCTTGCATTACGC
TTGATTGCAACAACTGGAGTAATGGCAACTGAATTGAAGCAAGGAAATCCTGATCAAGCA
AAATCGGTCTATGAGTTTGTCGTTAATGATATCAAGGGCAATCCAATCAGCATGGAAAAG
TACCGTGGCCATCCATTGATCATTGTCAACGTTGCATCTAAATGTGGATATACCGAAAAG
CATTATGCTGAATTGAATGCACTCTACGATGAATATGCCGAATCAAAGGGTTTACGTATT
CTTGCATTCCCATGTAGTCAATTTAGCATAGGAGAAGCTACTCCTGATGAACTTCAGGGA
TGTATAAAGGCTCATAACGTTAAATTTGATGTTTTTGAACATGTTAAAGTTAATGGCGAT
GATGCTCATCCATTATGGCAGTATTTGAAAAAACAACAAGGTGGAACAATTATTGATGCA
ATTAAATGGGATTATACTAAATTTATTGTTGACAAAAATGGCGTACCAGTTGACCGTTTT
GCTCCAACTACTGATCCATTAGAAATGATTGCAGATCTTAAGAAATACTTCGTAGGAGGA
GCTACTCCTGATGAATTTCAGGCATGTTTGAAGGCTCATAACGTTAAATTTGATGTTTTC
GGAACAGTTAAAGTTAATGGAGATGATGCTCATCCATTATGGAAATATTTGAAAAAACAA
CAGGATGGAACTTTGATTGATACAATTAAATGGGACTACACTAAATTTATTGTTGACAAA
AATGGCAAACCAGTTGACCGTTTTGCTCCAACTACTGATCCATTGAAAATGATTGAAGAT
CTTAAGAAATATATGTAA
>g13509.t1 Gene=g13509 Length=285
MLLLSFPKSIGLIGSVLALRLIATTGVMATELKQGNPDQAKSVYEFVVNDIKGNPISMEK
YRGHPLIIVNVASKCGYTEKHYAELNALYDEYAESKGLRILAFPCSQFSIGEATPDELQG
CIKAHNVKFDVFEHVKVNGDDAHPLWQYLKKQQGGTIIDAIKWDYTKFIVDKNGVPVDRF
APTTDPLEMIADLKKYFVGGATPDEFQACLKAHNVKFDVFGTVKVNGDDAHPLWKYLKKQ
QDGTLIDTIKWDYTKFIVDKNGKPVDRFAPTTDPLKMIEDLKKYM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g13509.t1 | CDD | cd00340 | GSH_Peroxidase | 42 | 193 | 1.8823E-71 |
| 12 | g13509.t1 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 30 | 201 | 2.3E-56 |
| 13 | g13509.t1 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 202 | 285 | 2.6E-25 |
| 3 | g13509.t1 | PANTHER | PTHR11592:SF121 | GLUTATHIONE PEROXIDASE | 27 | 197 | 1.6E-106 |
| 5 | g13509.t1 | PANTHER | PTHR11592 | GLUTATHIONE PEROXIDASE | 27 | 197 | 1.6E-106 |
| 2 | g13509.t1 | PANTHER | PTHR11592:SF121 | GLUTATHIONE PEROXIDASE | 204 | 284 | 1.6E-106 |
| 4 | g13509.t1 | PANTHER | PTHR11592 | GLUTATHIONE PEROXIDASE | 204 | 284 | 1.6E-106 |
| 6 | g13509.t1 | PRINTS | PR01011 | Glutathione peroxidase family signature | 61 | 78 | 2.4E-13 |
| 8 | g13509.t1 | PRINTS | PR01011 | Glutathione peroxidase family signature | 98 | 114 | 2.4E-13 |
| 7 | g13509.t1 | PRINTS | PR01011 | Glutathione peroxidase family signature | 161 | 170 | 2.4E-13 |
| 1 | g13509.t1 | Pfam | PF00255 | Glutathione peroxidase | 43 | 150 | 7.2E-32 |
| 15 | g13509.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 29 | - |
| 16 | g13509.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 9 | - |
| 17 | g13509.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 10 | 21 | - |
| 18 | g13509.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 22 | 29 | - |
| 14 | g13509.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 285 | - |
| 20 | g13509.t1 | ProSitePatterns | PS00460 | Glutathione peroxidases active site. | 63 | 78 | - |
| 21 | g13509.t1 | ProSiteProfiles | PS51355 | Glutathione peroxidase profile. | 33 | 203 | 56.535 |
| 22 | g13509.t1 | ProSiteProfiles | PS51355 | Glutathione peroxidase profile. | 202 | 285 | 27.101 |
| 10 | g13509.t1 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 41 | 196 | 6.94E-46 |
| 9 | g13509.t1 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 205 | 284 | 1.45E-18 |
| 11 | g13509.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 29 | - |
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:0006979 | response to oxidative stress | BP |
| GO:0004602 | glutathione peroxidase activity | MF |
| GO:0055114 | NA | NA |
KEGG
Orthology
- This transcript has been annotated with K00432 (glutathione 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. There were no conditions that were differentially expressed