General information for g16417.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Glutathione S-transferase.
Parent gene
- The parent gene g16417 is located on chr_4: 9388161..9392232 (- 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_4 | g16417 | g16417.t2 | isoform | g16417.t2 | 9384632 | 9392232 |
| chr_4 | g16417 | g16417.t2 | exon | g16417.t2.exon1 | 9384632 | 9384639 |
| chr_4 | g16417 | g16417.t2 | exon | g16417.t2.exon2 | 9388123 | 9388489 |
| chr_4 | g16417 | g16417.t2 | cds | g16417.t2.CDS1 | 9388161 | 9388489 |
| chr_4 | g16417 | g16417.t2 | exon | g16417.t2.exon3 | 9388948 | 9389115 |
| chr_4 | g16417 | g16417.t2 | cds | g16417.t2.CDS2 | 9388948 | 9389115 |
| chr_4 | g16417 | g16417.t2 | exon | g16417.t2.exon4 | 9389168 | 9389438 |
| chr_4 | g16417 | g16417.t2 | cds | g16417.t2.CDS3 | 9389168 | 9389300 |
| chr_4 | g16417 | g16417.t2 | exon | g16417.t2.exon5 | 9391758 | 9392232 |
| chr_4 | g16417 | g16417.t2 | TSS | g16417.t2 | 9392764 | 9392764 |
| chr_4 | g16417 | g16417.t2 | TTS | g16417.t2 | NA | NA |
Sequences
>g16417.t2 Gene=g16417 Length=1289
AAAATTTTTAATTTGTGTAATTTTGACTAAAATTACCAAAAAATTCTGTAGTTGAATTTG
AATCTTTTTAAAATATAAAAATTATTGAAATATTTCTTAATTTCACTTAATTAATTGAAT
TAATAAAAAATTTCTTCAAATTTTCAAGGAGGAAACATAGAGCTTAAATTAATCTAACTC
TGTTTTATTAGTGAAACCTTTTTGAAACAAACTTGCATCATAAAAGTGTAGAACTTACTA
TGATCAATAATTTATACAAGTATTATCCAAACTGTGTACTGTGATAATGTATGCATTGCT
ATACAAACATGATAAAAAATAGTTTACTTGTTCTAAATCACTTTAAGTTTCATTTTGTGT
TGTGTAGAAATTTCAAGATTTTTAATAGTAAAAAAGTAGTTTTAAAATGTAGAAGATTAT
GTAAAGCAAAAAAATTTAGAACACTAGTAAAAAGTAAAAAAATTGCTTACATTGTTTTCT
TTTTTCGTTTTACAAATACAAATAAAAAATTTTTTGTATCAATGTGTAGAATAAAAAATT
CTCATTTTCTCTCAAAAATTATTCGGTTAGTATTTTGTCAGCTTTTGAACGCTTCACATC
GCTTTTATCAAAAATGCCAACCTATAAAGTTAGTTATTTTACGTTTTCAGGCCTTGGTGA
GCCAGTTAGATACACAGCGGCTTATTGCAATGTTGATTTTATTGATAATCGTGTGACATG
GGAAGAATGGTCAAAATTAAAATCAACAACACCACTCGGACAAATGCCAATACTTGAGAT
TGATGGCAAAGTATATCATCAATCAATTCCAATTTGTCGCTACCTTGGCAACAAATTTAA
TCTTACCGGTGATAATGCAGAAGAAATTTATGAAGTTGATGTTGCTGCTGAAACTGTGAA
TGAATTACGTGGAAAAGTTGGAATGTGGGCGTACAGCTGCAAACGTGAAAAGAACGAAAA
ATATGAAGAACTTATCAAAAAGACAATTCCATCTTATCTTAGCAAGCTTGATGAGCAAGC
AGGAAAAAATGGAGGTTTCTTGGCAATCAAAGATAAAATAACATGGGCTGATTGTTTTGC
AACAGGCGTCTTGGAATATATCAACAGTTTGGTAGATCTTGATGTGCTTGTTGATTATAA
AAATTTACAAAAAGTTCGTGAAAATGTCGTTTCTTCCGAAGGTGTTAAAAAATATTTGAA
AAATCGTCCAGCTGAAGGAGAAAATCCTTTTAAAACTTGGTAGAAAAAATCTTTTGTTTT
TATGACTTTGTTGATGAAATAAAAAAGTT
>g16417.t2 Gene=g16417 Length=209
MPTYKVSYFTFSGLGEPVRYTAAYCNVDFIDNRVTWEEWSKLKSTTPLGQMPILEIDGKV
YHQSIPICRYLGNKFNLTGDNAEEIYEVDVAAETVNELRGKVGMWAYSCKREKNEKYEEL
IKKTIPSYLSKLDEQAGKNGGFLAIKDKITWADCFATGVLEYINSLVDLDVLVDYKNLQK
VRENVVSSEGVKKYLKNRPAEGENPFKTW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g16417.t2 | CDD | cd03039 | GST_N_Sigma_like | 4 | 72 | 0.0000000 |
| 11 | g16417.t2 | CDD | cd03192 | GST_C_Sigma_like | 83 | 185 | 0.0000000 |
| 8 | g16417.t2 | Gene3D | G3DSA:3.40.30.10 | Glutaredoxin | 4 | 196 | 0.0000000 |
| 7 | g16417.t2 | Gene3D | G3DSA:1.20.1050.10 | - | 76 | 187 | 0.0000000 |
| 3 | g16417.t2 | PANTHER | PTHR11571:SF234 | GLUTATHIONE S-TRANSFERASE S1 | 2 | 200 | 0.0000000 |
| 4 | g16417.t2 | PANTHER | PTHR11571 | GLUTATHIONE S-TRANSFERASE | 2 | 200 | 0.0000000 |
| 1 | g16417.t2 | Pfam | PF02798 | Glutathione S-transferase, N-terminal domain | 6 | 72 | 0.0000034 |
| 2 | g16417.t2 | Pfam | PF14497 | Glutathione S-transferase, C-terminal domain | 98 | 198 | 0.0000000 |
| 10 | g16417.t2 | ProSiteProfiles | PS50404 | Soluble glutathione S-transferase N-terminal domain profile. | 2 | 79 | 25.7540000 |
| 9 | g16417.t2 | ProSiteProfiles | PS50405 | Soluble glutathione S-transferase C-terminal domain profile. | 81 | 206 | 17.4770000 |
| 13 | g16417.t2 | SFLD | SFLDG01205 | AMPS.1 | 1 | 201 | 0.0000000 |
| 14 | g16417.t2 | SFLD | SFLDG00363 | AMPS (cytGST): Alpha-, Mu-, Pi-, and Sigma-like | 1 | 201 | 0.0000000 |
| 5 | g16417.t2 | SUPERFAMILY | SSF52833 | Thioredoxin-like | 2 | 76 | 0.0000000 |
| 6 | g16417.t2 | SUPERFAMILY | SSF47616 | GST C-terminal domain-like | 77 | 199 | 0.0000000 |
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 transcript has been annotated with K00799 (glutathione S-transferase)
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.
