Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t8 isoform g13509.t8 30575255 30583540
chr_1 g13509 g13509.t8 exon g13509.t8.exon1 30575255 30575331
chr_1 g13509 g13509.t8 cds g13509.t8.CDS1 30575255 30575331
chr_1 g13509 g13509.t8 exon g13509.t8.exon2 30579764 30579909
chr_1 g13509 g13509.t8 cds g13509.t8.CDS2 30579764 30579909
chr_1 g13509 g13509.t8 exon g13509.t8.exon3 30582937 30583540
chr_1 g13509 g13509.t8 cds g13509.t8.CDS3 30582937 30583241
chr_1 g13509 g13509.t8 TTS g13509.t8 30584495 30584495
chr_1 g13509 g13509.t8 TSS g13509.t8 NA NA

Sequences

>g13509.t8 Gene=g13509 Length=827
ATGTTGCTCCTTTCATTTCCAAAATCAATCGGATTAATCGGCTCTGTCCTTGCATTACGC
TTGATTGCAACAACTGGAGTAATGGCAACTGAATTGAAGCAAGGAAATCCTGATCAAGCA
AAATCGGTCTATGAGTTTGTCGTTAATGATATCAAGGGCAATCCAATCAGCATGGAAAAG
TACCGTGGCCATCCATTGATCATTGTCAACGTTGCATCTAAATGTTTACGTATTCTTGCA
TTCCCATGTAGTCAATTTAGCATAGGAGAAGCTACTCCTGATGAACTTCAGGGATGTATA
AAGGCTCATAACGTTAAATTTGATGTTTTTGAACATGTTAAAGTTAATGGCGATGATGCT
CATCCATTATGGCAGTATTTGAAAAAACAACAAGGTGGAACAATTATTGATGCAATTAAA
TGGGATTATACTAAATTTATTGTTGACAAAAATGGCGTACCAGTTGACCGTTTTGCTCCA
ACTACTGATCCATTAGAAATGATTGCAGATCTTAAGAAATACTTGTAAAGAGTAGATTTT
TATATTGCAAACTCTGCCTTATTTTACGAGTTACTTTAAATTTTTCATTCATCTTGAAAA
AATAATAGTTGTTTAAGATCATCATTCCAGTTATTTATAACGACGTTGACGGTTGAATTT
TATATTAATTAACTTGGCATATGACGACAAATTTTTATACTCTTTATCTCTCTTACATGT
AATGAAATATTCTCAAAATTTCTATAAATAATCCTTTTATTCTCTAATAATATGTTTTTT
TCACAATATTATGAAATGAATAAAGTGCAGGCATAAAAATATTCTTC

>g13509.t8 Gene=g13509 Length=175
MLLLSFPKSIGLIGSVLALRLIATTGVMATELKQGNPDQAKSVYEFVVNDIKGNPISMEK
YRGHPLIIVNVASKCLRILAFPCSQFSIGEATPDELQGCIKAHNVKFDVFEHVKVNGDDA
HPLWQYLKKQQGGTIIDAIKWDYTKFIVDKNGVPVDRFAPTTDPLEMIADLKKYL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g13509.t8 CDD cd00340 GSH_Peroxidase 42 171 1.08912E-59
10 g13509.t8 Gene3D G3DSA:3.40.30.10 Glutaredoxin 29 76 4.5E-10
9 g13509.t8 Gene3D G3DSA:3.40.30.10 Glutaredoxin 77 175 7.1E-30
3 g13509.t8 PANTHER PTHR11592:SF121 GLUTATHIONE PEROXIDASE 27 75 7.3E-55
5 g13509.t8 PANTHER PTHR11592 GLUTATHIONE PEROXIDASE 27 75 7.3E-55
4 g13509.t8 PANTHER PTHR11592:SF121 GLUTATHIONE PEROXIDASE 73 175 7.3E-55
6 g13509.t8 PANTHER PTHR11592 GLUTATHIONE PEROXIDASE 73 175 7.3E-55
16 g13509.t8 PIRSF PIRSF000303 Glutathion_perox 16 76 2.3E-12
17 g13509.t8 PIRSF PIRSF000303 Glutathion_perox 76 175 3.4E-31
2 g13509.t8 Pfam PF00255 Glutathione peroxidase 43 75 4.4E-7
1 g13509.t8 Pfam PF00255 Glutathione peroxidase 76 128 3.3E-11
12 g13509.t8 Phobius SIGNAL_PEPTIDE Signal peptide region 1 29 -
13 g13509.t8 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 9 -
14 g13509.t8 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 10 21 -
15 g13509.t8 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 22 29 -
11 g13509.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 30 175 -
19 g13509.t8 ProSiteProfiles PS51355 Glutathione peroxidase profile. 33 175 35.184
7 g13509.t8 SUPERFAMILY SSF52833 Thioredoxin-like 41 175 1.31E-35
8 g13509.t8 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 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