Gene loci information

Transcript annotation

  • This transcript has been annotated as Trehalase.

Parent gene

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.t9 TTS g17178.t9 12729498 12729498
chr_4 g17178 g17178.t9 isoform g17178.t9 12729721 12732437
chr_4 g17178 g17178.t9 exon g17178.t9.exon1 12729721 12730608
chr_4 g17178 g17178.t9 cds g17178.t9.CDS1 12730453 12730608
chr_4 g17178 g17178.t9 exon g17178.t9.exon2 12730787 12731185
chr_4 g17178 g17178.t9 cds g17178.t9.CDS2 12730787 12731185
chr_4 g17178 g17178.t9 exon g17178.t9.exon3 12731252 12731830
chr_4 g17178 g17178.t9 cds g17178.t9.CDS3 12731252 12731830
chr_4 g17178 g17178.t9 exon g17178.t9.exon4 12732419 12732437
chr_4 g17178 g17178.t9 cds g17178.t9.CDS4 12732419 12732427
chr_4 g17178 g17178.t9 TSS g17178.t9 NA NA

Sequences

>g17178.t9 Gene=g17178 Length=1885
GCTGTGTGAAATGTACAATACAACAAAAGGAATGCTTGAAAATTTCATGTCAATAGTAAC
ACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGTTCTCAGCCGCC
ACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATTGATTTTGCTGT
AAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAATCACACAGTACA
AGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCAAGACCAGAAAG
TTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGACAAAGAAGAACA
TTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCGCGATGGTTTAT
CAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGATATATCATACC
AGTTGAATTAAATGCTATTTTATATTGGAATGCCGTCATTATTGCTGAATTTTATGCTAT
TGCTGGCAATGAAACTAGAAAAAAAGAATACCTTAGAATAGCTAAGGACTTTATGGATGC
TGTAAATGAAGTGTTATGGGATGAAGAAACTGGAGCATGGCTCGATTATGATCTGATAAA
TGAAAAACACAGAAATTATTTCGTTCCAACAAATCTTTCGCCACTTTGGATGAAATGCTA
TGATATAACAAAACGCGAACACATTGCCTCAAAAGTCTTACAGTATATTGATAATTTAAA
ACTTGATGATTATCCTGGTGGTGTTCCAACAACTCTCATGAACAGTGGTGAACAATGGGA
TTGGCCAAATGTATGGGCACCAACGCAACATATTTTAATTGTTGGATTAGAAAATCTTGG
TGTTAAAGAGGCTCAAGAAAAAGCACAAGATTATGCACAACGATGGGTGCATGGCAATTA
TATTGCATTCAAAGAGAGTGGAGCTATGTATGAAAAGTATCTTGCAACAGAACTCGGCGG
ACATGGTGGAGGTGGTGAATATGAAGTCCAAAAAGGCTTCGGATGGACAAATGGTGTAAT
TCTTGATCTCCTTGATCGTTATGGCGAAGTTTTAAGTTCTTCAGGTGAAGAATCAAATTT
GATAAAGGAATAAAAAACTTTGCGAATCATTTTCATCACACAAAAAAAAATTTCGTGCAC
ATTTGTCCTATAATTATACACTGACACCCACCACACCACCATTTCATCATCTTTGTTATT
TGTTAATGTGAAGTCAAAAAAAAAGAATTTCTTAGGTCGTTGAGATAAAATTTAGGAAAT
TTGTTGTATCTAAAAATAAAATCATTCATTCAATTTAAGTTTCTGAGTTAGTTTAGCTGG
TGATAATTTTTTTTGTTTAATTTCTCTCTCATTTATGACGTAAGCTTTAATGACACAAAT
TAAAATAGTATATAGATGAACTACCGCGATGAAAAAAAGTTATGAGTGATAATCAATTAA
TTGTGTCTTTGCACTTCATATTAAATTTATTTCATAATGACGACAAATTTAAATAAAAAT
TCTAAAAAAATTATAAAAAAAATCATTAGTGAAAAATTTTGTTTCATTTCAAACCTTTGG
TTGTGGTTAAAACAAATTGAATTTTTTATGTTTCAAAGTTATCATTTCTAAAATTTTTAT
GGTTTCATGGAAATTCATTTTTTGGGTAGGTTTACACGAATTTATTAAAATATTTTTAAA
ATTTTTTGATTTCATTTATAAAAATATTTCATAAAAAATAAAATTTTCTTTTTAACAAAA
AATAGTTAAACCATCAACATTAGGAAAATTATTTACTGGAATAATTGCAGTGTCATCAAT
AATGATTTCTAGAGTTAGCTGGTGA

>g17178.t9 Gene=g17178 Length=380
MYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYV
DVLALEFNYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAE
LKAAAESGMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGN
ETRKKEYLRIAKDFMDAVNEVLWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDIT
KREHIASKVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVKE
AQEKAQDYAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILDL
LDRYGEVLSSSGEESNLIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g17178.t9 Gene3D G3DSA:1.50.10.10 - 1 377 4.7E-134
2 g17178.t9 PANTHER PTHR23403 TREHALASE 1 367 1.4E-143
3 g17178.t9 PANTHER PTHR23403:SF1 TREHALASE 1 367 1.4E-143
5 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 19 37 8.7E-47
4 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 83 100 8.7E-47
7 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 118 135 8.7E-47
10 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 155 172 8.7E-47
6 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 198 214 8.7E-47
9 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 268 284 8.7E-47
8 g17178.t9 PRINTS PR00744 Glycosyl hydrolase family 37 signature 348 361 8.7E-47
1 g17178.t9 Pfam PF01204 Trehalase 1 365 2.7E-122
12 g17178.t9 ProSitePatterns PS00928 Trehalase signature 2. 275 284 -
11 g17178.t9 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 365 6.32E-116

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.

Raw TPM values