General information for g17178.t27
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.t27 | TTS | g17178.t27 | 12730043 | 12730043 |
| chr_4 | g17178 | g17178.t27 | isoform | g17178.t27 | 12730789 | 12733505 |
| chr_4 | g17178 | g17178.t27 | exon | g17178.t27.exon1 | 12730789 | 12731830 |
| chr_4 | g17178 | g17178.t27 | cds | g17178.t27.CDS1 | 12731186 | 12731803 |
| chr_4 | g17178 | g17178.t27 | exon | g17178.t27.exon2 | 12732415 | 12732642 |
| chr_4 | g17178 | g17178.t27 | exon | g17178.t27.exon3 | 12732703 | 12732965 |
| chr_4 | g17178 | g17178.t27 | exon | g17178.t27.exon4 | 12733461 | 12733505 |
| chr_4 | g17178 | g17178.t27 | TSS | g17178.t27 | 12745583 | 12745583 |
Sequences
>g17178.t27 Gene=g17178 Length=1578
TCACAATGATGTATATTATCATCCAACTGCTGTTGGTAGTAATGGCGAAGTCTACTGTCA
TGGAAATTTATTACACACAGTACAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGT
TGATATGAAACTCAAAAATCCACCACATGAGACTATACAGCTTTTTAATAATTTTATGGC
TGATTTTCCTGATGGTTTACCCGACACTGATAAACTTCGACAATGGGTTGAAGAACATTT
TGATGAACCTGGTTCTGAATTTGAGCAATGGACGCCCGATGATTTTCAAAAATCACCAAA
ATTCTTAGATAAAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAAT
TTGGTTAGAATTGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTC
AATAATTCATGTCGATAATCCAGTAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTA
TTGGGATTCTTATTGGGTCATTCGAGGTTTACTGCTGTGTGAAATGTACAATGTAAACAA
CAAAAGGAATGCTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCAAATG
GTGGCAGAATATATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTCAAAA
CTTATGTTGAAACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTTGCAT
TAGAATTTAATTATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTAGCAA
GATATGGTGATAAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAAACAG
GAAGTGGTTTTCAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCAGCTG
CTGAAAGTGGAATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAATGTTG
GAACACTTGAGAATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATTTTAT
ATTGGAATGCCGTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGAAAAA
AAGAATACCTTAGAATAGCTAAGGACTTTATGGATGTAAGTTCAATTATTAAAAAAAAAT
TTAATAAGAACGTTTCTAATTTTTTTAAAAATAATTTTTAGGCTGTAAATGAAGTGTTAT
GGGATGAAGAAACTGGAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATT
ATTTCGTTCCAACAAATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCG
AACACATTGCCTCAAAAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTG
GTGGTGTTCCAACAACTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGG
CACCAACGCAACATATTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAG
AAAAAGCACAAGATTATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGA
GTGGAGCTATGTATGAAA
>g17178.t27 Gene=g17178 Length=205
MSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLA
NHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFS
SRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNETRKKEYLRIAK
DFMDVSSIIKKKFNKNVSNFFKNNF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g17178.t27 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 204 | 2.5E-61 |
| 10 | g17178.t27 | MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 97 | - |
| 9 | g17178.t27 | MobiDBLite | mobidb-lite | consensus disorder prediction | 80 | 97 | - |
| 2 | g17178.t27 | PANTHER | PTHR23403 | TREHALASE | 1 | 184 | 1.3E-64 |
| 3 | g17178.t27 | PANTHER | PTHR23403:SF1 | TREHALASE | 1 | 184 | 1.3E-64 |
| 4 | g17178.t27 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 7 | 25 | 3.2E-28 |
| 7 | g17178.t27 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 71 | 88 | 3.2E-28 |
| 6 | g17178.t27 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 106 | 123 | 3.2E-28 |
| 5 | g17178.t27 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 143 | 160 | 3.2E-28 |
| 1 | g17178.t27 | Pfam | PF01204 | Trehalase | 2 | 181 | 5.5E-52 |
| 8 | g17178.t27 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 3 | 184 | 1.45E-52 |
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.
