General information for g2408.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Glycerol-3-phosphate dehydrogenase [NAD(+)], cytoplasmic.
Parent gene
- The parent gene g2408 is located on chr_3: 17726090..17727100 (- 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 | g2408 | g2408.t2 | TTS | g2408.t2 | 17725761 | 17725761 |
| chr_3 | g2408 | g2408.t2 | isoform | g2408.t2 | 17725882 | 17726409 |
| chr_3 | g2408 | g2408.t2 | exon | g2408.t2.exon1 | 17725882 | 17726037 |
| chr_3 | g2408 | g2408.t2 | cds | g2408.t2.CDS1 | 17725882 | 17726037 |
| chr_3 | g2408 | g2408.t2 | exon | g2408.t2.exon2 | 17726091 | 17726409 |
| chr_3 | g2408 | g2408.t2 | cds | g2408.t2.CDS2 | 17726091 | 17726288 |
| chr_3 | g2408 | g2408.t2 | TSS | g2408.t2 | 17727190 | 17727190 |
Sequences
>g2408.t2 Gene=g2408 Length=475
AGATGTTGAGACTGTTGAAGTGTGTGGTGCATTGAAAAATATCGTTGCATGTGGAGCTGG
CTTTAGCGACGGTTTAGATCTCGGTGACAACACTAAAGCAGCAATCATTCGTTTGGGACT
AATGGAAATGATTAAATTTGTAGAAGTGTTTTATGATAAGAATCATAAATTGTCAACATT
CTTTGAGTCATGTGGGATTGCTGATTTAGTGACAACATGCTATGGTGGACGAAATAGAAA
ATGCAGTGAAGCATTTGTAAGAACTGGCAGAAATTTTGATGAATTAGAAAAAGAAATGTT
AAATGGTCAAAGATTACAGGGTCCAGAGACAGCAGCTGAAGTCTATCACATGTTAAAATG
TAAAAATATGGAAGAAAAATTTCCACTTTTTAGAGCTATTCATCGTATTTGCATCGGTGA
GATAAAACCAAAAGATTTGATCGACTGTATTCGTCAGCATCCGGAACACATGTGA
>g2408.t2 Gene=g2408 Length=117
MEMIKFVEVFYDKNHKLSTFFESCGIADLVTTCYGGRNRKCSEAFVRTGRNFDELEKEML
NGQRLQGPETAAEVYHMLKCKNMEEKFPLFRAIHRICIGEIKPKDLIDCIRQHPEHM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2408.t2 | Gene3D | G3DSA:1.10.1040.10 | - | 1 | 117 | 0 |
| 2 | g2408.t2 | PANTHER | PTHR11728 | GLYCEROL-3-PHOSPHATE DEHYDROGENASE | 1 | 116 | 0 |
| 3 | g2408.t2 | PANTHER | PTHR11728:SF7 | GLYCEROL-3-PHOSPHATE DEHYDROGENASE 1-LIKE PROTEIN | 1 | 116 | 0 |
| 1 | g2408.t2 | Pfam | PF07479 | NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus | 1 | 107 | 0 |
| 4 | g2408.t2 | SUPERFAMILY | SSF48179 | 6-phosphogluconate dehydrogenase C-terminal domain-like | 1 | 115 | 0 |
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:0005975 | carbohydrate metabolic process | BP |
| GO:0055114 | NA | NA |
| GO:0004367 | glycerol-3-phosphate dehydrogenase [NAD+] activity | MF |
| GO:0016491 | oxidoreductase activity | 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. There were no conditions that were differentially expressed