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.t30 TTS g17178.t30 12730331 12730331
chr_4 g17178 g17178.t30 isoform g17178.t30 12731160 12732503
chr_4 g17178 g17178.t30 exon g17178.t30.exon1 12731160 12731185
chr_4 g17178 g17178.t30 cds g17178.t30.CDS1 12731162 12731185
chr_4 g17178 g17178.t30 exon g17178.t30.exon2 12731252 12731830
chr_4 g17178 g17178.t30 cds g17178.t30.CDS2 12731252 12731830
chr_4 g17178 g17178.t30 exon g17178.t30.exon3 12732419 12732503
chr_4 g17178 g17178.t30 cds g17178.t30.CDS3 12732419 12732427
chr_4 g17178 g17178.t30 TSS g17178.t30 NA NA

Sequences

>g17178.t30 Gene=g17178 Length=690
TGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGGATTCTTATTGGGTCATTCGAGG
TTTACTGCTGTGTGAAATGTACAATACAACAAAAGGAATGCTTGAAAATTTCATGTCAAT
AGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGTTCTCA
GCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATTGATTT
TGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAATCACAC
AGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCAAGACC
AGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGACAAAGA
AGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCGCGATG
GTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGATATAT
CATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCCGTCATTATTGCTGAATTTTA
TGCTATTGCTGGCAATGAAACTAGAAAAAAAGAATACCTTAGAATAGCTAAGGACTTTAT
GGATGCTGTAAATGAAGTGTTATGGGATGA

>g17178.t30 Gene=g17178 Length=204
MYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYV
DVLALEFNYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAE
LKAAAESGMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGN
ETRKKEYLRIAKDFMDAVNEVLWD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g17178.t30 Gene3D G3DSA:1.50.10.10 - 1 204 9.5E-72
10 g17178.t30 MobiDBLite mobidb-lite consensus disorder prediction 88 109 -
11 g17178.t30 MobiDBLite mobidb-lite consensus disorder prediction 92 109 -
2 g17178.t30 PANTHER PTHR23403 TREHALASE 1 204 2.7E-74
3 g17178.t30 PANTHER PTHR23403:SF1 TREHALASE 1 204 2.7E-74
5 g17178.t30 PRINTS PR00744 Glycosyl hydrolase family 37 signature 19 37 4.6E-30
4 g17178.t30 PRINTS PR00744 Glycosyl hydrolase family 37 signature 83 100 4.6E-30
6 g17178.t30 PRINTS PR00744 Glycosyl hydrolase family 37 signature 118 135 4.6E-30
8 g17178.t30 PRINTS PR00744 Glycosyl hydrolase family 37 signature 155 172 4.6E-30
7 g17178.t30 PRINTS PR00744 Glycosyl hydrolase family 37 signature 198 204 4.6E-30
1 g17178.t30 Pfam PF01204 Trehalase 1 204 1.1E-61
9 g17178.t30 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 204 1.32E-61

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