General information for g13300.t25
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trehalose-6-phosphate phosphatase.
Parent gene
- The parent gene g13300 is located on chr_1: 29008579..29009204 (+ 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_1 | g13300 | g13300.t25 | isoform | g13300.t25 | 29007929 | 29008900 |
| chr_1 | g13300 | g13300.t25 | exon | g13300.t25.exon1 | 29007929 | 29007941 |
| chr_1 | g13300 | g13300.t25 | exon | g13300.t25.exon2 | 29008121 | 29008530 |
| chr_1 | g13300 | g13300.t25 | cds | g13300.t25.CDS1 | 29008521 | 29008530 |
| chr_1 | g13300 | g13300.t25 | exon | g13300.t25.exon3 | 29008605 | 29008900 |
| chr_1 | g13300 | g13300.t25 | cds | g13300.t25.CDS2 | 29008605 | 29008900 |
| chr_1 | g13300 | g13300.t25 | TTS | g13300.t25 | 29009276 | 29009276 |
| chr_1 | g13300 | g13300.t25 | TSS | g13300.t25 | NA | NA |
Sequences
>g13300.t25 Gene=g13300 Length=719
TCTGTTTTTTGTGATCACTCTCTGATAATAATAATTCATGACAATACTACACAAGCTAAC
TTTAAATCTCATTTTCACAGTCTTCGTTGTGAGTGCATTGAGAATTGTCGAACAATTAGA
TTTGAAACTTGAGCCACAAATGGAAGATTTAGAAAAATACTTGGAGGATTATGTGTCGAA
TAAACCATTCGCGTTATTACTCGATTATGACGGCACGTTGGCTGCCATTCAACCACATCC
AAATATGACATACATGACTGAATATACCAAAGAAGCGCTATTGAACATCTCATCTTACCC
CAACGTGTATTTAGCAGTTATATCCGGAAGGGGAGTTGATGATGTGAAGACAAAAGTTGG
TATCGATGGAATTGTTTATGCTGGAAATCATGGTCTCGAAATTTTATATCCTAATGGAAC
TCGTTCCAAGTGATGTTAAAGCAAATTTTACAAAAATGGTGGAAGCTTTAGAAAATCTTA
AAAGAGACGGAAGTTGGGTCGAAAATAAGAAATTCTCAGTAACTTTTCACTTTAGAGCTG
TGCCTGAAAAAGATCATGAGAAAATCAACAATGAAGCTAAGGAAATTATCGAGAAATTTG
GATATCGAGCAAATCCAGCTCATTGCGCTATTGAAGCAAAACCACCGGTAGTATGGCATA
AGGGCAAGGCAGCCGAATATATTTTAAATCACTCATTTGGTAAAGATTGGAGAGAAAAA
>g13300.t25 Gene=g13300 Length=102
MELVPSDVKANFTKMVEALENLKRDGSWVENKKFSVTFHFRAVPEKDHEKINNEAKEIIE
KFGYRANPAHCAIEAKPPVVWHKGKAAEYILNHSFGKDWREK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g13300.t25 | Gene3D | G3DSA:3.30.70.1020 | - | 10 | 78 | 0.0e+00 |
| 5 | g13300.t25 | Gene3D | G3DSA:3.40.50.1000 | - | 80 | 93 | 0.0e+00 |
| 2 | g13300.t25 | PANTHER | PTHR43768 | TREHALOSE 6-PHOSPHATE PHOSPHATASE | 8 | 93 | 0.0e+00 |
| 3 | g13300.t25 | PANTHER | PTHR43768:SF3 | TREHALOSE 6-PHOSPHATE PHOSPHATASE | 8 | 93 | 0.0e+00 |
| 1 | g13300.t25 | Pfam | PF02358 | Trehalose-phosphatase | 24 | 97 | 0.0e+00 |
| 4 | g13300.t25 | SUPERFAMILY | SSF56784 | HAD-like | 23 | 93 | 1.8e-06 |
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:0005992 | trehalose biosynthetic process | BP |
| GO:0003824 | catalytic 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