Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Glutathione S-transferase D7.

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 g5858 g5858.t1 TSS g5858.t1 12434779 12434779
chr_2 g5858 g5858.t1 isoform g5858.t1 12434809 12435620
chr_2 g5858 g5858.t1 exon g5858.t1.exon1 12434809 12435162
chr_2 g5858 g5858.t1 cds g5858.t1.CDS1 12434809 12435162
chr_2 g5858 g5858.t1 exon g5858.t1.exon2 12435235 12435402
chr_2 g5858 g5858.t1 cds g5858.t1.CDS2 12435235 12435402
chr_2 g5858 g5858.t1 exon g5858.t1.exon3 12435471 12435620
chr_2 g5858 g5858.t1 cds g5858.t1.CDS3 12435471 12435620
chr_2 g5858 g5858.t1 TTS g5858.t1 12435810 12435810

Sequences

>g5858.t1 Gene=g5858 Length=672
ATGTCGAAAAAACTTAAAAATACAATTTTATATCACAACATTCATAGTCCACCATCGCGA
ATGTGTTATTTGACCGCTCGCAATCTCGACATAGATCTTGAAATTCGTGACCTTGATATT
TTGAAAGGAGAGCAAAATTCAGGAGAATTTTTGAAAATTAACCCAATGCATCAAGTACCA
ACTCTCGTGCATGATGGTTTTGTTGTCACTGAAGCGAGAGCTATAATAATGTATTTGGCA
ACAATTGCTGAATCACCGCTTTATCCAATCAATGATTTAAAATTAAAAACTTTGATTGAT
TCACGACTTTTCTTTGATGCAACGAACTGCAGTTTTGCTGTTAAAAATTTTGCTTTTCCA
ATTTTGAGAAAAGGAATGAAAACAGTTCCAACAATAACTCGAGATTCATTAAAAACTTTA
TTGGCAAATTTGGAAGTTTTACTTGAAAATTCAAAGTGTTTTGCTGGTGATGAAATGACA
ATTGCTGATTTTTCATTTTTATCAAACGTTGCGACAATCAAGCAACTTGGAGCAGACTTC
AGCATTTATCCAAAACTAAATGATTGGTATGAAAGATGTCGATGCATTTCTGGTTTCACT
GAAAACGAAGAAGGAGCAAAAATGTTAGCTGAAAAACTTGCAAAACTACTTGATGAACCT
TTGTGGATTTGA

>g5858.t1 Gene=g5858 Length=223
MSKKLKNTILYHNIHSPPSRMCYLTARNLDIDLEIRDLDILKGEQNSGEFLKINPMHQVP
TLVHDGFVVTEARAIIMYLATIAESPLYPINDLKLKTLIDSRLFFDATNCSFAVKNFAFP
ILRKGMKTVPTITRDSLKTLLANLEVLLENSKCFAGDEMTIADFSFLSNVATIKQLGADF
SIYPKLNDWYERCRCISGFTENEEGAKMLAEKLAKLLDEPLWI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g5858.t1 CDD cd03177 GST_C_Delta_Epsilon 98 210 0.0000000
7 g5858.t1 Gene3D G3DSA:3.40.30.10 Glutaredoxin 4 82 0.0000000
6 g5858.t1 Gene3D G3DSA:1.20.1050.10 - 84 218 0.0000000
3 g5858.t1 PANTHER PTHR43969 GLUTATHIONE S TRANSFERASE D10, ISOFORM A-RELATED 7 212 0.0000000
2 g5858.t1 Pfam PF02798 Glutathione S-transferase, N-terminal domain 9 80 0.0000000
1 g5858.t1 Pfam PF00043 Glutathione S-transferase, C-terminal domain 127 193 0.0000001
9 g5858.t1 ProSiteProfiles PS50404 Soluble glutathione S-transferase N-terminal domain profile. 6 87 17.3790000
8 g5858.t1 ProSiteProfiles PS50405 Soluble glutathione S-transferase C-terminal domain profile. 92 216 14.4970000
11 g5858.t1 SFLD SFLDG00358 Main (cytGST) 10 194 0.0000000
12 g5858.t1 SFLD SFLDS00019 Glutathione Transferase (cytosolic) 10 194 0.0000000
4 g5858.t1 SUPERFAMILY SSF52833 Thioredoxin-like 7 83 0.0000000
5 g5858.t1 SUPERFAMILY SSF47616 GST C-terminal domain-like 85 206 0.0000000

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5858/g5858.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5858.t1.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0006749 glutathione metabolic process BP
GO:0005515 protein binding MF

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.

Raw TPM values