Gene loci information

Transcript annotation

  • This transcript has been annotated as Peroxiredoxin-4.

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_2 g7608 g7608.t2 TTS g7608.t2 24908670 24908670
chr_2 g7608 g7608.t2 isoform g7608.t2 24908768 24911021
chr_2 g7608 g7608.t2 exon g7608.t2.exon1 24908768 24908853
chr_2 g7608 g7608.t2 cds g7608.t2.CDS1 24908768 24908853
chr_2 g7608 g7608.t2 exon g7608.t2.exon2 24910238 24910599
chr_2 g7608 g7608.t2 cds g7608.t2.CDS2 24910238 24910599
chr_2 g7608 g7608.t2 exon g7608.t2.exon3 24910658 24911021
chr_2 g7608 g7608.t2 cds g7608.t2.CDS3 24910658 24910746
chr_2 g7608 g7608.t2 TSS g7608.t2 24911300 24911300

Sequences

>g7608.t2 Gene=g7608 Length=812
ATGCTGAAGCATTTTGTTATTTTCTCCTTCGTACTCTTTGGATTAGCTTTTGCAAATGAC
GATGGTTCATGCTTTGCAGCCCCAAAAGGTAACACTATCAATATCTATAATTGTGCACCT
GACGTGTGTAATATTGATAAGGCTCATTCATAACATTTTTGACTTTTTCAGATGTGTACC
CAACTGATAAAAGTTCTAATAAAATTGAACACAGTTTGCAATATACTAAGGCAGTGATCT
CAAAGCCTGCACCTCAATTTTCTGGCACAGCTGTTATGAATGGAGAATTTAAAACAATAA
GTTTGAATGATTATCTTGGAAAATATGTAGTTTTCTTCTTCTATCCTTTGGATTTCACAT
TTGTATGCCCAACAGAAATTTTGGCATTTAGCGATAGAATTGATGAATTTAAAAAGATTA
ACACGGAAGTTATTGCTGCTTCAGTTGATTCTCATTTTACACATCTATCATGGACAAAGA
CACCAAGAAAAGAAGGTGGTTTAGGAAATGTGAAAATTCCTTTGCTGAGCGATTTATCGC
ATAAAATATCTAAAGATTATGGAGTTTATTTGGAGGATCTTGGCCATACACTTAGAGGAC
TTTTCATTATTGATGCAAAAGGTGTTTTACGTCAGATTACAATGAATGATTTGCCAGTTG
GACGTAGTGTCGATGAAACTCTTCGTTTGGTACAAGCTTTTCAATATACTGATACTCATG
GTGAAGTGTGTCCTAGTGGCTGGATGCCGGGATCTAGAACCATCATCCCTGATCCTGAGG
AGAAGCTAAAATACTTTGAGAAAGAGTTATGA

>g7608.t2 Gene=g7608 Length=178
MNGEFKTISLNDYLGKYVVFFFYPLDFTFVCPTEILAFSDRIDEFKKINTEVIAASVDSH
FTHLSWTKTPRKEGGLGNVKIPLLSDLSHKISKDYGVYLEDLGHTLRGLFIIDAKGVLRQ
ITMNDLPVGRSVDETLRLVQAFQYTDTHGEVCPSGWMPGSRTIIPDPEEKLKYFEKEL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g7608.t2 CDD cd03015 PRX_Typ2cys 2 159 2.55436E-109
6 g7608.t2 Gene3D G3DSA:3.40.30.10 Glutaredoxin 1 178 3.6E-84
3 g7608.t2 PANTHER PTHR10681 THIOREDOXIN PEROXIDASE 1 177 8.2E-110
4 g7608.t2 PANTHER PTHR10681:SF157 PEROXIREDOXIN-4 1 177 8.2E-110
10 g7608.t2 PIRSF PIRSF000239 AHPC 1 178 1.1E-57
2 g7608.t2 Pfam PF00578 AhpC/TSA family 2 120 7.0E-34
1 g7608.t2 Pfam PF10417 C-terminal domain of 1-Cys peroxiredoxin 141 169 7.7E-11
8 g7608.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
9 g7608.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 38 -
7 g7608.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 39 178 -
12 g7608.t2 ProSiteProfiles PS51352 Thioredoxin domain profile. 1 144 14.587
5 g7608.t2 SUPERFAMILY SSF52833 Thioredoxin-like 2 175 2.56E-64

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

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.

Raw TPM values