General information for g17178.t20
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.t20 | TTS | g17178.t20 | 12730043 | 12730043 |
| chr_4 | g17178 | g17178.t20 | isoform | g17178.t20 | 12730044 | 12733505 |
| chr_4 | g17178 | g17178.t20 | exon | g17178.t20.exon1 | 12730044 | 12730608 |
| chr_4 | g17178 | g17178.t20 | cds | g17178.t20.CDS1 | 12730453 | 12730608 |
| chr_4 | g17178 | g17178.t20 | exon | g17178.t20.exon2 | 12730787 | 12731185 |
| chr_4 | g17178 | g17178.t20 | cds | g17178.t20.CDS2 | 12730787 | 12731185 |
| chr_4 | g17178 | g17178.t20 | exon | g17178.t20.exon3 | 12731252 | 12731830 |
| chr_4 | g17178 | g17178.t20 | cds | g17178.t20.CDS3 | 12731252 | 12731818 |
| chr_4 | g17178 | g17178.t20 | exon | g17178.t20.exon4 | 12732415 | 12732642 |
| chr_4 | g17178 | g17178.t20 | exon | g17178.t20.exon5 | 12732714 | 12732965 |
| chr_4 | g17178 | g17178.t20 | exon | g17178.t20.exon6 | 12733461 | 12733505 |
| chr_4 | g17178 | g17178.t20 | TSS | g17178.t20 | NA | NA |
Sequences
>g17178.t20 Gene=g17178 Length=2068
TCACAATGATGTATATTATCATCCAACTGCTGTTGGTAGTAATGGCGAAGTCTACTGTCA
TGGAAATTTATTACACACAGTACAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGT
TGATATGAAACTCAAAAATCCACCACATGAGACTATACAGCTTTTTAATAATTTTATGGC
TGATTTTCCTGATGGTTTACCCGACACTGATAAACTTCGACAATGGGTTGAAGAACATTT
TGATGAACCTGGTTCTGAATTTGAGCAATGGACGCCCGATGATTTTCAAAAATCACCATA
AAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAATTTGGTTAGAAT
TGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTCAATAATTCATG
TCGATAATCCAGTAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGGATTCTT
ATTGGGTCATTCGAGGTTTACTGCTGTGTGAAATGTACAATGTAAACAACAAAAGGAATG
CTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATA
TATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAA
ACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAAT
TATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGAT
AAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTT
CAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGA
ATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAG
AATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCC
GTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGAAAAAAAGAATACCTT
AGAATAGCTAAGGACTTTATGGATGCTGTAAATGAAGTGTTATGGGATGAAGAAACTGGA
GCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATTATTTCGTTCCAACAAAT
CTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCGAACACATTGCCTCAAAA
GTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTGGTGGTGTTCCAACAACT
CTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGGCACCAACGCAACATATT
TTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGCACAAGATTAT
GCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGAGTGGAGCTATGTATGAA
AAGTATCTTGCAACAGAACTCGGCGGACATGGTGGAGGTGGTGAATATGAAGTCCAAAAA
GGCTTCGGATGGACAAATGGTGTAATTCTTGATCTCCTTGATCGTTATGGCGAAGTTTTA
AGTTCTTCAGGTGAAGAATCAAATTTGATAAAGGAATAAAAAACTTTGCGAATCATTTTC
ATCACACAAAAAAAAATTTCGTGCACATTTGTCCTATAATTATACACTGACACCCACCAC
ACCACCATTTCATCATCTTTGTTATTTGTTAATGTGAAGTCAAAAAAAAAGAATTTCTTA
GGTCGTTGAGATAAAATTTAGGAAATTTGTTGTATCTAAAAATAAAATCATTCATTCAAT
TTAAGTTTCTGAGTTAGTTTAGCTGGTGATAATTTTTTTTGTTTAATTTCTCTCTCATTT
ATGACGTAAGCTTTAATGACACAAATTAAAATAGTATATAGATGAACTACCGCGATGAAA
AAAAGTTATGAGTGATAATCAATTAATTGTGTCTTTGCACTTCATATTAAATTTATTTCA
TAATGACGACAAATTTAAATAAAAATTC
>g17178.t20 Gene=g17178 Length=373
MLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDVLALEF
NYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELKAAAES
GMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNETRKKEY
LRIAKDFMDAVNEVLWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDITKREHIAS
KVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVKEAQEKAQD
YAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILDLLDRYGEV
LSSSGEESNLIKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17178.t20 | Gene3D | G3DSA:1.50.10.10 | - | 1 | 370 | 3.1E-131 |
| 2 | g17178.t20 | PANTHER | PTHR23403 | TREHALASE | 1 | 360 | 1.6E-140 |
| 3 | g17178.t20 | PANTHER | PTHR23403:SF1 | TREHALASE | 1 | 360 | 1.6E-140 |
| 7 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 12 | 30 | 7.8E-47 |
| 6 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 76 | 93 | 7.8E-47 |
| 9 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 111 | 128 | 7.8E-47 |
| 8 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 148 | 165 | 7.8E-47 |
| 4 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 191 | 207 | 7.8E-47 |
| 10 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 261 | 277 | 7.8E-47 |
| 5 | g17178.t20 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 341 | 354 | 7.8E-47 |
| 1 | g17178.t20 | Pfam | PF01204 | Trehalase | 1 | 358 | 4.3E-120 |
| 12 | g17178.t20 | ProSitePatterns | PS00928 | Trehalase signature 2. | 268 | 277 | - |
| 11 | g17178.t20 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 1 | 358 | 1.02E-113 |
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. There were no conditions that were differentially expressed