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.t32 TTS g17178.t32 12730331 12730331
chr_4 g17178 g17178.t32 isoform g17178.t32 12731296 12732927
chr_4 g17178 g17178.t32 exon g17178.t32.exon1 12731296 12731830
chr_4 g17178 g17178.t32 cds g17178.t32.CDS1 12731297 12731830
chr_4 g17178 g17178.t32 exon g17178.t32.exon2 12732419 12732642
chr_4 g17178 g17178.t32 cds g17178.t32.CDS2 12732419 12732642
chr_4 g17178 g17178.t32 exon g17178.t32.exon3 12732703 12732927
chr_4 g17178 g17178.t32 cds g17178.t32.CDS3 12732703 12732925
chr_4 g17178 g17178.t32 TSS g17178.t32 NA NA

Sequences

>g17178.t32 Gene=g17178 Length=984
AGATGGCTCGACTTTATAATGATTCAAAGACTTTTGTTGATATGAAACTCAAAAATCCAC
CACATGAGACTATACAGCTTTTTAATAATTTTATGGCTGATTTTCCTGATGGTTTACCCG
ACACTGATAAACTTCGACAATGGGTTGAAGAACATTTTGATGAACCTGGTTCTGAATTTG
AGCAATGGACGCCCGATGATTTTCAAAAATCACCAAAATTCTTAGATAAAATAAGTGATA
AAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAATTTGGTTAGAATTGGGAAGAAAAA
TGAAGCCAGATGTAAAAATTAATGAAGATCACTATTCAATAATTCATGTCGATAATCCAG
TAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGGATTCTTATTGGGTCATTC
GAGGTTTACTGCTGTGTGAAATGTACAATACAACAAAAGGAATGCTTGAAAATTTCATGT
CAATAGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGTT
CTCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATTG
ATTTTGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAATC
ACACAGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCAA
GACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGACA
AAGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCGC
GATGGTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGAT
ATATCATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCCGTCATTATTGCTGAAT
TTTATGCTATTGCTGGCAATGAAA

>g17178.t32 Gene=g17178 Length=327
MARLYNDSKTFVDMKLKNPPHETIQLFNNFMADFPDGLPDTDKLRQWVEEHFDEPGSEFE
QWTPDDFQKSPKFLDKISDKNFRDFASELNGIWLELGRKMKPDVKINEDHYSIIHVDNPV
IVPGGRFREFYYWDSYWVIRGLLLCEMYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRS
QPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLANHTVQVKGHTLARYGDKSNGPR
PESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFSSRWFINDEGTNVGTLENLKTRY
IIPVELNAILYWNAVIIAEFYAIAGNE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g17178.t32 Gene3D G3DSA:1.50.10.10 - 1 327 1.6E-116
2 g17178.t32 PANTHER PTHR23403 TREHALASE 1 326 2.8E-132
3 g17178.t32 PANTHER PTHR23403:SF1 TREHALASE 1 326 2.8E-132
4 g17178.t32 PRINTS PR00744 Glycosyl hydrolase family 37 signature 165 183 1.4E-27
6 g17178.t32 PRINTS PR00744 Glycosyl hydrolase family 37 signature 229 246 1.4E-27
5 g17178.t32 PRINTS PR00744 Glycosyl hydrolase family 37 signature 264 281 1.4E-27
7 g17178.t32 PRINTS PR00744 Glycosyl hydrolase family 37 signature 301 318 1.4E-27
1 g17178.t32 Pfam PF01204 Trehalase 4 326 1.7E-100
9 g17178.t32 ProSitePatterns PS00927 Trehalase signature 1. 123 136 -
8 g17178.t32 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 327 3.2E-89

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