General information for g17178.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Trehalase.
Parent gene
- The parent gene g17178 is located on chr_4: 12745227..12745915 (- 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 | g17178 | g17178.t3 | TTS | g17178.t3 | 12729498 | 12729498 |
| chr_4 | g17178 | g17178.t3 | isoform | g17178.t3 | 12729651 | 12731184 |
| chr_4 | g17178 | g17178.t3 | exon | g17178.t3.exon1 | 12729651 | 12729653 |
| chr_4 | g17178 | g17178.t3 | exon | g17178.t3.exon2 | 12729715 | 12729800 |
| chr_4 | g17178 | g17178.t3 | cds | g17178.t3.CDS1 | 12729721 | 12729800 |
| chr_4 | g17178 | g17178.t3 | exon | g17178.t3.exon3 | 12730482 | 12730608 |
| chr_4 | g17178 | g17178.t3 | cds | g17178.t3.CDS2 | 12730482 | 12730608 |
| chr_4 | g17178 | g17178.t3 | exon | g17178.t3.exon4 | 12730787 | 12731184 |
| chr_4 | g17178 | g17178.t3 | cds | g17178.t3.CDS3 | 12730787 | 12731074 |
| chr_4 | g17178 | g17178.t3 | TSS | g17178.t3 | NA | NA |
Sequences
>g17178.t3 Gene=g17178 Length=614
CTGTAAATGAAGTGTTATGGGATGAAGAAACTGGAGCATGGCTCGATTATGATCTGATAA
ATGAAAAACACAGAAATTATTTCGTTCCAACAAATCTTTCGCCACTTTGGATGAAATGCT
ATGATATAACAAAACGCGAACACATTGCCTCAAAAGTCTTACAGTATATTGATAATTTAA
AACTTGATGATTATCCTGGTGGTGTTCCAACAACTCTCATGAACAGTGGTGAACAATGGG
ATTGGCCAAATGTATGGGCACCAACGCAACATATTTTAATTGTTGGATTAGAAAATCTTG
GTGTTAAAGAGGCTCAAGAAAAAGCACAAGATTATGCACAACGATGGGTGCATGGCAATT
ATATTGCATTCAAAGAGAGTGGAGCTATGTATGAAAAGTATCTTGCAACAGAACTCGGCG
GACATGGTGGAGGTGGTGAATATGAAGTCCAAAAAGGCTTCGGATGGACAAATGGTGTAA
TTCTTGATCTCCTTGATCGTTATGGCGAAGTTTTAAGTTCTTCAGTTAAACCATCAACAT
TAGGAAAATTATTTACTGGAATAATTGCAGTGTCATCAATAATGATTTCTAGAGTTAGCT
GGTGAGAAATGACT
>g17178.t3 Gene=g17178 Length=164
MKCYDITKREHIASKVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGL
ENLGVKEAQEKAQDYAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWT
NGVILDLLDRYGEVLSSSVKPSTLGKLFTGIIAVSSIMISRVSW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g17178.t3 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 143 | 5.4E-42 |
| 2 | g17178.t3 | PANTHER | PTHR23403 | TREHALASE | 8 | 133 | 3.3E-45 |
| 4 | g17178.t3 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 35 | 51 | 2.5E-7 |
| 3 | g17178.t3 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 115 | 128 | 2.5E-7 |
| 1 | g17178.t3 | Pfam | PF01204 | Trehalase | 5 | 132 | 4.9E-40 |
| 6 | g17178.t3 | ProSitePatterns | PS00928 | Trehalase signature 2. | 42 | 51 | - |
| 5 | g17178.t3 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 10 | 132 | 4.53E-37 |
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:0004555 | alpha,alpha-trehalase activity | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
| GO:0005991 | trehalose metabolic process | BP |
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.
