General information for g17178.t23
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.t23 | TTS | g17178.t23 | 12730043 | 12730043 |
| chr_4 | g17178 | g17178.t23 | isoform | g17178.t23 | 12730044 | 12745915 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon1 | 12730044 | 12730608 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS1 | 12730453 | 12730608 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon2 | 12730787 | 12731185 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS2 | 12730787 | 12731185 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon3 | 12731252 | 12731830 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS3 | 12731252 | 12731830 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon4 | 12732419 | 12732642 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS4 | 12732419 | 12732642 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon5 | 12732703 | 12732965 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS5 | 12732703 | 12732965 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon6 | 12733461 | 12733505 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS6 | 12733461 | 12733505 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon7 | 12745400 | 12745586 |
| chr_4 | g17178 | g17178.t23 | cds | g17178.t23.CDS7 | 12745400 | 12745419 |
| chr_4 | g17178 | g17178.t23 | exon | g17178.t23.exon8 | 12745825 | 12745915 |
| chr_4 | g17178 | g17178.t23 | TSS | g17178.t23 | 12745915 | 12745915 |
Sequences
>g17178.t23 Gene=g17178 Length=2353
AGTCTCCATATAGTCGGTGAATTGAAAAGAACAAAGGTCGTTGAATTGTTGACTTTTTTC
TCTTTTAGAGAGAAATTTTTGAATCATCAGATTCATTCTTTGTTAGTCAGCGAGTGAAGC
AAGTTGTGAAATAAATTCTCTCTCTGAAATACAGTATTGGATTTTTTTAAATTCTTTAAT
TACTGACAAGACCAAATAGAGGAAAAAGTCAACTTTAATTAAAGTTCGTGCAAGAAAATA
CTAAAAGTATTTTTCAATATGCCTTCTGAGGAAAGCAGTCACAATGATGTATATTATCAT
CCAACTGCTGTTGGTAGTAATGGCGAAGTCTACTGTCATGGAAATTTATTACACACAGTA
CAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGTTGATATGAAACTCAAAAATCCA
CCACATGAGACTATACAGCTTTTTAATAATTTTATGGCTGATTTTCCTGATGGTTTACCC
GACACTGATAAACTTCGACAATGGGTTGAAGAACATTTTGATGAACCTGGTTCTGAATTT
GAGCAATGGACGCCCGATGATTTTCAAAAATCACCAAAATTCTTAGATAAAATAAGTGAT
AAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAATTTGGTTAGAATTGGGAAGAAAA
ATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTCAATAATTCATGTCGATAATCCA
GTAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGGATTCTTATTGGGTCATT
CGAGGTTTACTGCTGTGTGAAATGTACAATACAACAAAAGGAATGCTTGAAAATTTCATG
TCAATAGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGT
TCTCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATT
GATTTTGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAAT
CACACAGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCA
AGACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGAC
AAAGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCG
CGATGGTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGA
TATATCATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCCGTCATTATTGCTGAA
TTTTATGCTATTGCTGGCAATGAAACTAGAAAAAAAGAATACCTTAGAATAGCTAAGGAC
TTTATGGATGCTGTAAATGAAGTGTTATGGGATGAAGAAACTGGAGCATGGCTCGATTAT
GATCTGATAAATGAAAAACACAGAAATTATTTCGTTCCAACAAATCTTTCGCCACTTTGG
ATGAAATGCTATGATATAACAAAACGCGAACACATTGCCTCAAAAGTCTTACAGTATATT
GATAATTTAAAACTTGATGATTATCCTGGTGGTGTTCCAACAACTCTCATGAACAGTGGT
GAACAATGGGATTGGCCAAATGTATGGGCACCAACGCAACATATTTTAATTGTTGGATTA
GAAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGCACAAGATTATGCACAACGATGGGTG
CATGGCAATTATATTGCATTCAAAGAGAGTGGAGCTATGTATGAAAAGTATCTTGCAACA
GAACTCGGCGGACATGGTGGAGGTGGTGAATATGAAGTCCAAAAAGGCTTCGGATGGACA
AATGGTGTAATTCTTGATCTCCTTGATCGTTATGGCGAAGTTTTAAGTTCTTCAGGTGAA
GAATCAAATTTGATAAAGGAATAAAAAACTTTGCGAATCATTTTCATCACACAAAAAAAA
ATTTCGTGCACATTTGTCCTATAATTATACACTGACACCCACCACACCACCATTTCATCA
TCTTTGTTATTTGTTAATGTGAAGTCAAAAAAAAAGAATTTCTTAGGTCGTTGAGATAAA
ATTTAGGAAATTTGTTGTATCTAAAAATAAAATCATTCATTCAATTTAAGTTTCTGAGTT
AGTTTAGCTGGTGATAATTTTTTTTGTTTAATTTCTCTCTCATTTATGACGTAAGCTTTA
ATGACACAAATTAAAATAGTATATAGATGAACTACCGCGATGAAAAAAAGTTATGAGTGA
TAATCAATTAATTGTGTCTTTGCACTTCATATTAAATTTATTTCATAATGACGACAAATT
TAAATAAAAATTC
>g17178.t23 Gene=g17178 Length=561
MPSEESSHNDVYYHPTAVGSNGEVYCHGNLLHTVQMARLYNDSKTFVDMKLKNPPHETIQ
LFNNFMADFPDGLPDTDKLRQWVEEHFDEPGSEFEQWTPDDFQKSPKFLDKISDKNFRDF
ASELNGIWLELGRKMKPDVKINEDHYSIIHVDNPVIVPGGRFREFYYWDSYWVIRGLLLC
EMYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKY
VDVLALEFNYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYA
ELKAAAESGMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAG
NETRKKEYLRIAKDFMDAVNEVLWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDI
TKREHIASKVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVK
EAQEKAQDYAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILD
LLDRYGEVLSSSGEESNLIKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g17178.t23 | Gene3D | G3DSA:1.50.10.10 | - | 16 | 558 | 4.9E-194 |
| 2 | g17178.t23 | PANTHER | PTHR23403 | TREHALASE | 19 | 548 | 2.5E-216 |
| 3 | g17178.t23 | PANTHER | PTHR23403:SF1 | TREHALASE | 19 | 548 | 2.5E-216 |
| 6 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 200 | 218 | 9.3E-46 |
| 5 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 264 | 281 | 9.3E-46 |
| 10 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 299 | 316 | 9.3E-46 |
| 9 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 336 | 353 | 9.3E-46 |
| 4 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 379 | 395 | 9.3E-46 |
| 8 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 449 | 465 | 9.3E-46 |
| 7 | g17178.t23 | PRINTS | PR00744 | Glycosyl hydrolase family 37 signature | 529 | 542 | 9.3E-46 |
| 1 | g17178.t23 | Pfam | PF01204 | Trehalase | 39 | 546 | 3.7E-167 |
| 12 | g17178.t23 | ProSitePatterns | PS00927 | Trehalase signature 1. | 158 | 171 | - |
| 13 | g17178.t23 | ProSitePatterns | PS00928 | Trehalase signature 2. | 456 | 465 | - |
| 11 | g17178.t23 | SUPERFAMILY | SSF48208 | Six-hairpin glycosidases | 24 | 546 | 3.06E-156 |
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 transcript has been annotated with K01194 (alpha,alpha-trehalase)
Pathway
- This transcript belongs to the following pathways
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.
