Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Probable phospholipid hydroperoxide glutathione peroxidase.

Parent gene

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.t9 isoform g13509.t9 30575255 30583540
chr_1 g13509 g13509.t9 exon g13509.t9.exon1 30575255 30575331
chr_1 g13509 g13509.t9 exon g13509.t9.exon2 30579790 30579975
chr_1 g13509 g13509.t9 cds g13509.t9.CDS1 30579858 30579975
chr_1 g13509 g13509.t9 exon g13509.t9.exon3 30582937 30583540
chr_1 g13509 g13509.t9 cds g13509.t9.CDS2 30582937 30583241
chr_1 g13509 g13509.t9 TTS g13509.t9 30584495 30584495
chr_1 g13509 g13509.t9 TSS g13509.t9 NA NA

Sequences

>g13509.t9 Gene=g13509 Length=867
ATGTTGCTCCTTTCATTTCCAAAATCAATCGGATTAATCGGCTCTGTCCTTGCATTACGC
TTGATTGCAACAACTGGGAAATCCTGATCAAGCAAAATCGGTCTATGAGTTTGTCGTTAA
TGATATCAAGGGCAATCCAATCAGCATGGAAAAGTACCGTGGCCATCCATTGATCATTGT
CAACGTTGCATCTAAATGTGGATATACCGAAAAGCATTATGCTGAATTGAATGCACTCTA
CGATGAATATGCCGAATCAAAGGGTTTACGTATTCTTGCATTCCCATGTAGTCAATTTAG
CATAGGAGAAGCTACTCCTGATGAACTTCAGGGATGTATAAAGGCTCATAACGTTAAATT
TGATGTTTTTGAACATGTTAAAGTTAATGGCGATGATGCTCATCCATTATGGCAGTATTT
GAAAAAACAACAAGGTGGAACAATTATTGATGCAATTAAATGGGATTATACTAAATTTAT
TGTTGACAAAAATGGCGTACCAGTTGACCGTTTTGCTCCAACTACTGATCCATTAGAAAT
GATTGCAGATCTTAAGAAATACTTGTAAAGAGTAGATTTTTATATTGCAAACTCTGCCTT
ATTTTACGAGTTACTTTAAATTTTTCATTCATCTTGAAAAAATAATAGTTGTTTAAGATC
ATCATTCCAGTTATTTATAACGACGTTGACGGTTGAATTTTATATTAATTAACTTGGCAT
ATGACGACAAATTTTTATACTCTTTATCTCTCTTACATGTAATGAAATATTCTCAAAATT
TCTATAAATAATCCTTTTATTCTCTAATAATATGTTTTTTTCACAATATTATGAAATGAA
TAAAGTGCAGGCATAAAAATATTCTTC

>g13509.t9 Gene=g13509 Length=140
MEKYRGHPLIIVNVASKCGYTEKHYAELNALYDEYAESKGLRILAFPCSQFSIGEATPDE
LQGCIKAHNVKFDVFEHVKVNGDDAHPLWQYLKKQQGGTIIDAIKWDYTKFIVDKNGVPV
DRFAPTTDPLEMIADLKKYL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g13509.t9 CDD cd00340 GSH_Peroxidase 1 136 4.99899E-65
8 g13509.t9 Gene3D G3DSA:3.40.30.10 Glutaredoxin 1 140 5.8E-49
2 g13509.t9 PANTHER PTHR11592:SF121 GLUTATHIONE PEROXIDASE 1 140 4.4E-60
3 g13509.t9 PANTHER PTHR11592 GLUTATHIONE PEROXIDASE 1 140 4.4E-60
9 g13509.t9 PIRSF PIRSF000303 Glutathion_perox 1 140 3.1E-51
4 g13509.t9 PRINTS PR01011 Glutathione peroxidase family signature 4 21 5.1E-14
5 g13509.t9 PRINTS PR01011 Glutathione peroxidase family signature 41 57 5.1E-14
6 g13509.t9 PRINTS PR01011 Glutathione peroxidase family signature 104 113 5.1E-14
1 g13509.t9 Pfam PF00255 Glutathione peroxidase 1 93 1.1E-27
11 g13509.t9 ProSitePatterns PS00460 Glutathione peroxidases active site. 6 21 -
12 g13509.t9 ProSiteProfiles PS51355 Glutathione peroxidase profile. 1 140 53.654
7 g13509.t9 SUPERFAMILY SSF52833 Thioredoxin-like 2 140 2.21E-41

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 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. There were no conditions that were differentially expressed