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.t24 TTS g17178.t24 12730043 12730043
chr_4 g17178 g17178.t24 isoform g17178.t24 12730051 12732503
chr_4 g17178 g17178.t24 exon g17178.t24.exon1 12730051 12730608
chr_4 g17178 g17178.t24 cds g17178.t24.CDS1 12730453 12730608
chr_4 g17178 g17178.t24 exon g17178.t24.exon2 12730787 12731185
chr_4 g17178 g17178.t24 cds g17178.t24.CDS2 12730787 12731185
chr_4 g17178 g17178.t24 exon g17178.t24.exon3 12731336 12731830
chr_4 g17178 g17178.t24 cds g17178.t24.CDS3 12731336 12731830
chr_4 g17178 g17178.t24 exon g17178.t24.exon4 12732419 12732503
chr_4 g17178 g17178.t24 cds g17178.t24.CDS4 12732419 12732427
chr_4 g17178 g17178.t24 TSS g17178.t24 NA NA

Sequences

>g17178.t24 Gene=g17178 Length=1537
TGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGGATTCTTATTGGGTCATTCGAGG
TTTACTGCTGTGTGAAATGTACAATACAACAAAAGGAATGCTTGAAAATTTCATGTCAAT
AGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGTTCTCA
GCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATTGATTT
TGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAATCACAC
AGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCAAGACC
AGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGACAAAGA
AGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCGCGATG
GTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGATATAT
CATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCCGCTGTAAATGAAGTGTTATG
GGATGAAGAAACTGGAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATTA
TTTCGTTCCAACAAATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCGA
ACACATTGCCTCAAAAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTGG
TGGTGTTCCAACAACTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGGC
ACCAACGCAACATATTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAGA
AAAAGCACAAGATTATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGAG
TGGAGCTATGTATGAAAAGTATCTTGCAACAGAACTCGGCGGACATGGTGGAGGTGGTGA
ATATGAAGTCCAAAAAGGCTTCGGATGGACAAATGGTGTAATTCTTGATCTCCTTGATCG
TTATGGCGAAGTTTTAAGTTCTTCAGGTGAAGAATCAAATTTGATAAAGGAATAAAAAAC
TTTGCGAATCATTTTCATCACACAAAAAAAAATTTCGTGCACATTTGTCCTATAATTATA
CACTGACACCCACCACACCACCATTTCATCATCTTTGTTATTTGTTAATGTGAAGTCAAA
AAAAAAGAATTTCTTAGGTCGTTGAGATAAAATTTAGGAAATTTGTTGTATCTAAAAATA
AAATCATTCATTCAATTTAAGTTTCTGAGTTAGTTTAGCTGGTGATAATTTTTTTTGTTT
AATTTCTCTCTCATTTATGACGTAAGCTTTAATGACACAAATTAAAATAGTATATAGATG
AACTACCGCGATGAAAAAAAGTTATGAGTGATAATCAATTAATTGTGTCTTTGCACTTCA
TATTAAATTTATTTCATAATGACGACAAATTTAAATA

>g17178.t24 Gene=g17178 Length=352
MYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYV
DVLALEFNYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAE
LKAAAESGMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAAVNEVLWDEETG
AWLDYDLINEKHRNYFVPTNLSPLWMKCYDITKREHIASKVLQYIDNLKLDDYPGGVPTT
LMNSGEQWDWPNVWAPTQHILIVGLENLGVKEAQEKAQDYAQRWVHGNYIAFKESGAMYE
KYLATELGGHGGGGEYEVQKGFGWTNGVILDLLDRYGEVLSSSGEESNLIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g17178.t24 Gene3D G3DSA:1.50.10.10 - 1 168 9.2E-60
13 g17178.t24 Gene3D G3DSA:1.50.10.10 - 169 349 1.3E-58
3 g17178.t24 PANTHER PTHR23403 TREHALASE 1 167 1.1E-129
5 g17178.t24 PANTHER PTHR23403:SF1 TREHALASE 1 167 1.1E-129
2 g17178.t24 PANTHER PTHR23403 TREHALASE 168 339 1.1E-129
4 g17178.t24 PANTHER PTHR23403:SF1 TREHALASE 168 339 1.1E-129
7 g17178.t24 PRINTS PR00744 Glycosyl hydrolase family 37 signature 19 37 7.2E-34
6 g17178.t24 PRINTS PR00744 Glycosyl hydrolase family 37 signature 83 100 7.2E-34
8 g17178.t24 PRINTS PR00744 Glycosyl hydrolase family 37 signature 118 135 7.2E-34
10 g17178.t24 PRINTS PR00744 Glycosyl hydrolase family 37 signature 240 256 7.2E-34
9 g17178.t24 PRINTS PR00744 Glycosyl hydrolase family 37 signature 320 333 7.2E-34
1 g17178.t24 Pfam PF01204 Trehalase 167 337 2.4E-57
12 g17178.t24 ProSitePatterns PS00928 Trehalase signature 2. 247 256 -
11 g17178.t24 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 337 5.02E-104

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