General information for g3540.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
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.t4 | isoform | g3540.t4 | 26288495 | 26290163 |
| chr_3 | g3540 | g3540.t4 | exon | g3540.t4.exon1 | 26288495 | 26289525 |
| chr_3 | g3540 | g3540.t4 | cds | g3540.t4.CDS1 | 26289382 | 26289525 |
| chr_3 | g3540 | g3540.t4 | exon | g3540.t4.exon2 | 26289590 | 26290163 |
| chr_3 | g3540 | g3540.t4 | cds | g3540.t4.CDS2 | 26289590 | 26289811 |
| chr_3 | g3540 | g3540.t4 | TSS | g3540.t4 | 26290206 | 26290206 |
| chr_3 | g3540 | g3540.t4 | TTS | g3540.t4 | NA | NA |
Sequences
>g3540.t4 Gene=g3540 Length=1605
ATGTCATTAAAACTTTACTTTGCACCAGGAAGTATGCCTAGTCGAGCTTGTCGATTATTG
GCAGCATATTTAAAATTAGACATTGAGATAAAAACAGTTGATTTAGCTGTTGGTGAATAA
AACACTCCAGAATTTTTGCAACCTAATCCATTACATCAAGTGCCAGTGCTAGTTGATGGA
AATTTTGTTTTATGTGAATCTCGAGCGATTTTGGCTTATTTAGTTAACAAATATAGTCCA
AATAGTTCTCTTTATCCAAATGATCCACAGAAAAGAGCACTGATTGATCAGCGTCTTTAT
TACGACGCCACTGTAGTTTTTGAATCGTGTGCTCAGATTATTGTGAGTATAAATGCTTTG
TATTATTATTTCTCTCAATTTTGAACTTCACTCTCTTTTAAAGCGTACTGTGCTATATAA
ACAAGTGAAAAAAATTCCTCAAGAGCAACGTGAAAAAGTTTCAGAGACTCTCTTTATGTT
GGAAAAATTTCTTTCTCCAAATGACAAATGGTTTGCAAATAACAAACTTTCTATTGCGGA
CATATCAATTCTTCCAACTATAACGACGATAAAAGAACTTGGTTATGATCTCAGCAAACA
TCAAAGACTTAATGAATGGTATGAAAGATGCAAGTCGTTGCCAGGATATGAAGATAATGT
TGATGGAGCTAAATATTTAGCTAATAGAATGTTTGCAATATTGGATGATAAACTATAAAA
AATGACATGGAAAGTGTCCGTGCGTAGTATGGGGACACTTAAGCGCATTTTTGGTGCCTA
GATCAGTGTATGTTAACTAATTACAGAACTATTAAATTCATTTGAGAAACAGATTCACAC
TTTAAAATAATTTGATTAAAATAAATTCAAAATATAGGAGAAATCATATTTATAAAATTT
TGATATATGAAAGTACGGCGAGCGTTCTAAATTGATACTTAATTTACTGAATGTTCTGAT
AATAAACTTTATTGATATCAAAAAACGGTTGAGTAATATTCAAAATATTTGCCGTTTCAA
TATTTGCCGTTGGTGGCGCTGCAATCGTTTTCGCAGCCAACTTCGCGTTGTTTACATTTT
TCAATTTGGAAATTTAAATTCGTAATTTCAATCAGTGGCAACATTCTAATAAAGATTGCC
GCCAGTAACTCGATTGCACAAATCAAACGCAACAAACCGGAAGTCTCTAGCTATTGTAGT
TTTCGAGATCTCGCGCCTCACCAGCCAGCCAGCCAGCCGTTCAAAGTGAATGTATAAGCT
GCATTGTTGTTCCAAAAATGCGCTAAAAATTAAAAAAAAATGCAAATGTTCGTTTAATTG
TATTGATGAAATCTCATAAATAAATTTACAAACACTCTTTGATAAAATGGAAAATCACAT
AAGCTAAAAATAATTTTATCATGTATTTTAAACTTTTATCATTCAAAAGTGTTGCCTTAG
TATATTAAATTAAGTTGTTATAAAAGATAAGCGTATTTACCTTAAATCAAGTATATTTGT
CGATTTTATCAAGCATTTTTCGAGATTAAATAAAAGTTTATGCAGAATACAAAAAGTATT
TTATGATACTTCTTGATTCAACCTGTTTTCTTTATTATTATTAGG
>g3540.t4 Gene=g3540 Length=121
MLCIIISLNFELHSLLKRTVLYKQVKKIPQEQREKVSETLFMLEKFLSPNDKWFANNKLS
IADISILPTITTIKELGYDLSKHQRLNEWYERCKSLPGYEDNVDGAKYLANRMFAILDDK
L
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g3540.t4 | CDD | cd03177 | GST_C_Delta_Epsilon | 8 | 110 | 0.000 |
| 4 | g3540.t4 | Gene3D | G3DSA:1.20.1050.10 | - | 4 | 119 | 0.000 |
| 2 | g3540.t4 | PANTHER | PTHR43969 | GLUTATHIONE S TRANSFERASE D10, ISOFORM A-RELATED | 17 | 107 | 0.000 |
| 1 | g3540.t4 | Pfam | PF00043 | Glutathione S-transferase, C-terminal domain | 25 | 97 | 0.000 |
| 5 | g3540.t4 | ProSiteProfiles | PS50405 | Soluble glutathione S-transferase C-terminal domain profile. | 1 | 114 | 13.594 |
| 3 | g3540.t4 | SUPERFAMILY | SSF47616 | GST C-terminal domain-like | 19 | 103 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
