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.t2 isoform g17178.t2 12720975 12731185
chr_4 g17178 g17178.t2 exon g17178.t2.exon1 12720975 12721248
chr_4 g17178 g17178.t2 exon g17178.t2.exon2 12730051 12730608
chr_4 g17178 g17178.t2 cds g17178.t2.CDS1 12730453 12730608
chr_4 g17178 g17178.t2 exon g17178.t2.exon3 12730787 12731185
chr_4 g17178 g17178.t2 cds g17178.t2.CDS2 12730787 12731074
chr_4 g17178 g17178.t2 TSS g17178.t2 NA NA
chr_4 g17178 g17178.t2 TTS g17178.t2 NA NA

Sequences

>g17178.t2 Gene=g17178 Length=1231
GCTGTAAATGAAGTGTTATGGGATGAAGAAACTGGAGCATGGCTCGATTATGATCTGATA
AATGAAAAACACAGAAATTATTTCGTTCCAACAAATCTTTCGCCACTTTGGATGAAATGC
TATGATATAACAAAACGCGAACACATTGCCTCAAAAGTCTTACAGTATATTGATAATTTA
AAACTTGATGATTATCCTGGTGGTGTTCCAACAACTCTCATGAACAGTGGTGAACAATGG
GATTGGCCAAATGTATGGGCACCAACGCAACATATTTTAATTGTTGGATTAGAAAATCTT
GGTGTTAAAGAGGCTCAAGAAAAAGCACAAGATTATGCACAACGATGGGTGCATGGCAAT
TATATTGCATTCAAAGAGAGTGGAGCTATGTATGAAAAGTATCTTGCAACAGAACTCGGC
GGACATGGTGGAGGTGGTGAATATGAAGTCCAAAAAGGCTTCGGATGGACAAATGGTGTA
ATTCTTGATCTCCTTGATCGTTATGGCGAAGTTTTAAGTTCTTCAGGTGAAGAATCAAAT
TTGATAAAGGAATAAAAAACTTTGCGAATCATTTTCATCACACAAAAAAAAATTTCGTGC
ACATTTGTCCTATAATTATACACTGACACCCACCACACCACCATTTCATCATCTTTGTTA
TTTGTTAATGTGAAGTCAAAAAAAAAGAATTTCTTAGGTCGTTGAGATAAAATTTAGGAA
ATTTGTTGTATCTAAAAATAAAATCATTCATTCAATTTAAGTTTCTGAGTTAGTTTAGCT
GGTGATAATTTTTTTTGTTTAATTTCTCTCTCATTTATGACGTAAGCTTTAATGACACAA
ATTAAAATAGTATATAGATGAACTACCGCGATGAAAAAAAGTTATGAGTGATAATCAATT
AATTGTGTCTTTGCACTTCATATTAAATTTATTTCATAATGACGACAAATTTAAATAAAA
TTCCAAAAATCAATTAAAGCTGAATTTTTTTTAATTCTAAAAAAGATTTAAATGGCAGCA
TATAGGAAAATTAACAATAAAGTTATATTAGAAAATATTTTGCTCTACAATTCTAAAATT
TCATGAAATACTTAAATTGATTTAGAAATGAAAATTTTTGGCAAAGTACATTTTTTTATA
ACAAACTTCTGGTCTTTCATCAGAAAATTCACCATCAATAAAAAACTGATAGATACTTTT
AAAATATTAATTCCTTAGAACTATATTTACC

>g17178.t2 Gene=g17178 Length=147
MKCYDITKREHIASKVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGL
ENLGVKEAQEKAQDYAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWT
NGVILDLLDRYGEVLSSSGEESNLIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g17178.t2 Gene3D G3DSA:1.50.10.10 - 1 145 2.5E-42
2 g17178.t2 PANTHER PTHR23403 TREHALASE 8 133 3.7E-45
4 g17178.t2 PRINTS PR00744 Glycosyl hydrolase family 37 signature 35 51 2.1E-7
3 g17178.t2 PRINTS PR00744 Glycosyl hydrolase family 37 signature 115 128 2.1E-7
1 g17178.t2 Pfam PF01204 Trehalase 5 132 3.4E-40
6 g17178.t2 ProSitePatterns PS00928 Trehalase signature 2. 42 51 -
5 g17178.t2 SUPERFAMILY SSF48208 Six-hairpin glycosidases 10 132 2.61E-37

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