General information for g17178.t17
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.t17 | TTS | g17178.t17 | 12730043 | 12730043 |
| chr_4 | g17178 | g17178.t17 | isoform | g17178.t17 | 12730044 | 12732718 |
| chr_4 | g17178 | g17178.t17 | exon | g17178.t17.exon1 | 12730044 | 12730608 |
| chr_4 | g17178 | g17178.t17 | exon | g17178.t17.exon2 | 12730781 | 12731185 |
| chr_4 | g17178 | g17178.t17 | cds | g17178.t17.CDS1 | 12731175 | 12731185 |
| chr_4 | g17178 | g17178.t17 | exon | g17178.t17.exon3 | 12731248 | 12731830 |
| chr_4 | g17178 | g17178.t17 | cds | g17178.t17.CDS2 | 12731248 | 12731830 |
| chr_4 | g17178 | g17178.t17 | exon | g17178.t17.exon4 | 12732419 | 12732642 |
| chr_4 | g17178 | g17178.t17 | cds | g17178.t17.CDS3 | 12732419 | 12732568 |
| chr_4 | g17178 | g17178.t17 | exon | g17178.t17.exon5 | 12732703 | 12732718 |
| chr_4 | g17178 | g17178.t17 | TSS | g17178.t17 | NA | NA |
Sequences
>g17178.t17 Gene=g17178 Length=1793
TCACCAAAATTCTTAGATAAAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTA
AATGGAATTTGGTTAGAATTGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGAT
CACTATTCAATAATTCATGTCGATAATCCAGTAATTGTGCCAGGTGGAAGATTTAGAGAA
TTCTATTATTGGGATTCTTATTGGGTCATTCGAGGTTTACTGCTGTGTGAAATGTACAAT
ACAACAAAAGGAATGCTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCA
AATGGTGGCAGAATATATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTC
AAAACTTATGTTGAAACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTT
GCATTAGAATTTAATTATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTA
GCAAGATATGGTGATAAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAA
ACAGGAAGTGGTTTTCAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCA
GCTGCTGAAAGTGGAATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAAT
GTTGGAACACTTGAGAATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATT
TTATATTGGAATGCCGTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGA
AAAAAAGAATACCTTAGAATAGCTAAGGACTTTATGGATGTAAGCTGTAAATGAAGTGTT
ATGGGATGAAGAAACTGGAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAA
TTATTTCGTTCCAACAAATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACG
CGAACACATTGCCTCAAAAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCC
TGGTGGTGTTCCAACAACTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATG
GGCACCAACGCAACATATTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCA
AGAAAAAGCACAAGATTATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGA
GAGTGGAGCTATGTATGAAAAGGTAAATTATCTTGCAACAGAACTCGGCGGACATGGTGG
AGGTGGTGAATATGAAGTCCAAAAAGGCTTCGGATGGACAAATGGTGTAATTCTTGATCT
CCTTGATCGTTATGGCGAAGTTTTAAGTTCTTCAGGTGAAGAATCAAATTTGATAAAGGA
ATAAAAAACTTTGCGAATCATTTTCATCACACAAAAAAAAATTTCGTGCACATTTGTCCT
ATAATTATACACTGACACCCACCACACCACCATTTCATCATCTTTGTTATTTGTTAATGT
GAAGTCAAAAAAAAAGAATTTCTTAGGTCGTTGAGATAAAATTTAGGAAATTTGTTGTAT
CTAAAAATAAAATCATTCATTCAATTTAAGTTTCTGAGTTAGTTTAGCTGGTGATAATTT
TTTTTGTTTAATTTCTCTCTCATTTATGACGTAAGCTTTAATGACACAAATTAAAATAGT
ATATAGATGAACTACCGCGATGAAAAAAAGTTATGAGTGATAATCAATTAATTGTGTCTT
TGCACTTCATATTAAATTTATTTCATAATGACGACAAATTTAAATAAAAATTC
>g17178.t17 Gene=g17178 Length=247
MKPDVKINEDHYSIIHVDNPVIVPGGRFREFYYWDSYWVIRGLLLCEMYNTTKGMLENFM
SIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLAN
HTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFSS
RWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNETRKKEYLRIAKD
FMDVSCK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g17178.t17 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 244 | 1.3E-93 |
| 2 | g17178.t17 | PANTHER | PTHR23403 | TREHALASE | 1 | 242 | 1.6E-99 |
| 3 | g17178.t17 | PANTHER | PTHR23403:SF1 | TREHALASE | 1 | 242 | 1.6E-99 |
| 7 | g17178.t17 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 66 | 84 | 5.6E-28 |
| 5 | g17178.t17 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 130 | 147 | 5.6E-28 |
| 6 | g17178.t17 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 165 | 182 | 5.6E-28 |
| 4 | g17178.t17 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 202 | 219 | 5.6E-28 |
| 1 | g17178.t17 | Pfam | PF01204 | Trehalase | 2 | 239 | 7.4E-82 |
| 9 | g17178.t17 | ProSitePatterns | PS00927 | Trehalase signature 1. | 24 | 37 | - |
| 8 | g17178.t17 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 7 | 241 | 2.58E-77 |
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.
