General information for g17178.t28
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.t28 | TTS | g17178.t28 | 12730043 | 12730043 |
| chr_4 | g17178 | g17178.t28 | isoform | g17178.t28 | 12730801 | 12732927 |
| chr_4 | g17178 | g17178.t28 | exon | g17178.t28.exon1 | 12730801 | 12731185 |
| chr_4 | g17178 | g17178.t28 | cds | g17178.t28.CDS1 | 12730802 | 12731185 |
| chr_4 | g17178 | g17178.t28 | exon | g17178.t28.exon2 | 12731252 | 12731830 |
| chr_4 | g17178 | g17178.t28 | cds | g17178.t28.CDS2 | 12731252 | 12731830 |
| chr_4 | g17178 | g17178.t28 | exon | g17178.t28.exon3 | 12732419 | 12732642 |
| chr_4 | g17178 | g17178.t28 | cds | g17178.t28.CDS3 | 12732419 | 12732642 |
| chr_4 | g17178 | g17178.t28 | exon | g17178.t28.exon4 | 12732703 | 12732927 |
| chr_4 | g17178 | g17178.t28 | cds | g17178.t28.CDS4 | 12732703 | 12732925 |
| chr_4 | g17178 | g17178.t28 | TSS | g17178.t28 | NA | NA |
Sequences
>g17178.t28 Gene=g17178 Length=1413
AGATGGCTCGACTTTATAATGATTCAAAGACTTTTGTTGATATGAAACTCAAAAATCCAC
CACATGAGACTATACAGCTTTTTAATAATTTTATGGCTGATTTTCCTGATGGTTTACCCG
ACACTGATAAACTTCGACAATGGGTTGAAGAACATTTTGATGAACCTGGTTCTGAATTTG
AGCAATGGACGCCCGATGATTTTCAAAAATCACCAAAATTCTTAGATAAAATAAGTGATA
AAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAATTTGGTTAGAATTGGGAAGAAAAA
TGAAGCCAGATGTAAAAATTAATGAAGATCACTATTCAATAATTCATGTCGATAATCCAG
TAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGGATTCTTATTGGGTCATTC
GAGGTTTACTGCTGTGTGAAATGTACAATACAACAAAAGGAATGCTTGAAAATTTCATGT
CAATAGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGTT
CTCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATTG
ATTTTGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAATC
ACACAGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCAA
GACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGACA
AAGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCGC
GATGGTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGAT
ATATCATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCCGTCATTATTGCTGAAT
TTTATGCTATTGCTGGCAATGAAACTAGAAAAAAAGAATACCTTAGAATAGCTAAGGACT
TTATGGATGCTGTAAATGAAGTGTTATGGGATGAAGAAACTGGAGCATGGCTCGATTATG
ATCTGATAAATGAAAAACACAGAAATTATTTCGTTCCAACAAATCTTTCGCCACTTTGGA
TGAAATGCTATGATATAACAAAACGCGAACACATTGCCTCAAAAGTCTTACAGTATATTG
ATAATTTAAAACTTGATGATTATCCTGGTGGTGTTCCAACAACTCTCATGAACAGTGGTG
AACAATGGGATTGGCCAAATGTATGGGCACCAACGCAACATATTTTAATTGTTGGATTAG
AAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGCACAAGATTATGCACAACGATGGGTGC
ATGGCAATTATATTGCATTCAAAGAGAGTGGAG
>g17178.t28 Gene=g17178 Length=470
MARLYNDSKTFVDMKLKNPPHETIQLFNNFMADFPDGLPDTDKLRQWVEEHFDEPGSEFE
QWTPDDFQKSPKFLDKISDKNFRDFASELNGIWLELGRKMKPDVKINEDHYSIIHVDNPV
IVPGGRFREFYYWDSYWVIRGLLLCEMYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRS
QPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLANHTVQVKGHTLARYGDKSNGPR
PESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFSSRWFINDEGTNVGTLENLKTRY
IIPVELNAILYWNAVIIAEFYAIAGNETRKKEYLRIAKDFMDAVNEVLWDEETGAWLDYD
LINEKHRNYFVPTNLSPLWMKCYDITKREHIASKVLQYIDNLKLDDYPGGVPTTLMNSGE
QWDWPNVWAPTQHILIVGLENLGVKEAQEKAQDYAQRWVHGNYIAFKESG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17178.t28 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 470 | 2.9E-162 |
| 2 | g17178.t28 | PANTHER | PTHR23403 | TREHALASE | 1 | 470 | 2.5E-185 |
| 3 | g17178.t28 | PANTHER | PTHR23403:SF1 | TREHALASE | 1 | 470 | 2.5E-185 |
| 4 | g17178.t28 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 165 | 183 | 2.0E-40 |
| 6 | g17178.t28 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 229 | 246 | 2.0E-40 |
| 5 | g17178.t28 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 264 | 281 | 2.0E-40 |
| 7 | g17178.t28 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 301 | 318 | 2.0E-40 |
| 8 | g17178.t28 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 344 | 360 | 2.0E-40 |
| 9 | g17178.t28 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 414 | 430 | 2.0E-40 |
| 1 | g17178.t28 | Pfam | PF01204 | Trehalase | 4 | 469 | 1.9E-147 |
| 11 | g17178.t28 | ProSitePatterns | PS00927 | Trehalase signature 1. | 123 | 136 | - |
| 12 | g17178.t28 | ProSitePatterns | PS00928 | Trehalase signature 2. | 421 | 430 | - |
| 10 | g17178.t28 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 1 | 470 | 5.67E-131 |
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.
