General information for g3540.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Glutathione S-transferase 1, isoform C.
Parent gene
- The parent gene g3540 is located on chr_3: 26289382..26290163 (- 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_3 | g3540 | g3540.t1 | TTS | g3540.t1 | 26288546 | 26288546 |
| chr_3 | g3540 | g3540.t1 | isoform | g3540.t1 | 26289382 | 26290163 |
| chr_3 | g3540 | g3540.t1 | exon | g3540.t1.exon1 | 26289382 | 26289525 |
| chr_3 | g3540 | g3540.t1 | cds | g3540.t1.CDS1 | 26289382 | 26289525 |
| chr_3 | g3540 | g3540.t1 | exon | g3540.t1.exon2 | 26289590 | 26289760 |
| chr_3 | g3540 | g3540.t1 | cds | g3540.t1.CDS2 | 26289590 | 26289760 |
| chr_3 | g3540 | g3540.t1 | exon | g3540.t1.exon3 | 26289822 | 26290003 |
| chr_3 | g3540 | g3540.t1 | cds | g3540.t1.CDS3 | 26289822 | 26290003 |
| chr_3 | g3540 | g3540.t1 | exon | g3540.t1.exon4 | 26290052 | 26290163 |
| chr_3 | g3540 | g3540.t1 | cds | g3540.t1.CDS4 | 26290052 | 26290163 |
| chr_3 | g3540 | g3540.t1 | TSS | g3540.t1 | 26290206 | 26290206 |
Sequences
>g3540.t1 Gene=g3540 Length=609
ATGTCATTAAAACTTTACTTTGCACCAGGAAGTATGCCTAGTCGAGCTTGTCGATTATTG
GCAGCATATTTAAAATTAGACATTGAGATAAAAACAGTTGATTTAGCTGTTGTGCCAGTG
CTAGTTGATGGAAATTTTGTTTTATGTGAATCTCGAGCGATTTTGGCTTATTTAGTTAAC
AAATATAGTCCAAATAGTTCTCTTTATCCAAATGATCCACAGAAAAGAGCACTGATTGAT
CAGCGTCTTTATTACGACGCCACTGTAGTTTTTGAATCGTGTGCTCAGATTATTCGTACT
GTGCTATATAAACAAGTGAAAAAAATTCCTCAAGAGCAACGTGAAAAAGTTTCAGAGACT
CTCTTTATGTTGGAAAAATTTCTTTCTCCAAATGACAAATGGTTTGCAAATAACAAACTT
TCTATTGCGGACATATCAATTCTTCCAACTATAACGACGATAAAAGAACTTGGTTATGAT
CTCAGCAAACATCAAAGACTTAATGAATGGTATGAAAGATGCAAGTCGTTGCCAGGATAT
GAAGATAATGTTGATGGAGCTAAATATTTAGCTAATAGAATGTTTGCAATATTGGATGAT
AAACTATAA
>g3540.t1 Gene=g3540 Length=202
MSLKLYFAPGSMPSRACRLLAAYLKLDIEIKTVDLAVVPVLVDGNFVLCESRAILAYLVN
KYSPNSSLYPNDPQKRALIDQRLYYDATVVFESCAQIIRTVLYKQVKKIPQEQREKVSET
LFMLEKFLSPNDKWFANNKLSIADISILPTITTIKELGYDLSKHQRLNEWYERCKSLPGY
EDNVDGAKYLANRMFAILDDKL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g3540.t1 | CDD | cd03177 | GST_C_Delta_Epsilon | 74 | 191 | 0.000 |
| 8 | g3540.t1 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 1 | 63 | 0.000 |
| 7 | g3540.t1 | Gene3D | G3DSA:1.20.1050.10 | - | 64 | 199 | 0.000 |
| 3 | g3540.t1 | PANTHER | PTHR43969:SF9 | GLUTATHIONE S TRANSFERASE D10, ISOFORM A-RELATED | 1 | 188 | 0.000 |
| 4 | g3540.t1 | PANTHER | PTHR43969 | GLUTATHIONE S TRANSFERASE D10, ISOFORM A-RELATED | 1 | 188 | 0.000 |
| 2 | g3540.t1 | Pfam | PF02798 | Glutathione S-transferase, N-terminal domain | 1 | 59 | 0.000 |
| 1 | g3540.t1 | Pfam | PF00043 | Glutathione S-transferase, C-terminal domain | 105 | 178 | 0.000 |
| 10 | g3540.t1 | ProSiteProfiles | PS50404 | Soluble glutathione S-transferase N-terminal domain profile. | 1 | 66 | 16.916 |
| 9 | g3540.t1 | ProSiteProfiles | PS50405 | Soluble glutathione S-transferase C-terminal domain profile. | 72 | 195 | 18.460 |
| 12 | g3540.t1 | SFLD | SFLDG00358 | Main (cytGST) | 3 | 176 | 0.000 |
| 13 | g3540.t1 | SFLD | SFLDS00019 | Glutathione Transferase (cytosolic) | 3 | 176 | 0.000 |
| 5 | g3540.t1 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 3 | 76 | 0.000 |
| 6 | g3540.t1 | SUPERFAMILY | SSF47616 | GST C-terminal domain-like | 57 | 186 | 0.000 |
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: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.
