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.t4 TTS g17178.t4 12729498 12729498
chr_4 g17178 g17178.t4 isoform g17178.t4 12729651 12731825
chr_4 g17178 g17178.t4 exon g17178.t4.exon1 12729651 12729653
chr_4 g17178 g17178.t4 exon g17178.t4.exon2 12729715 12729800
chr_4 g17178 g17178.t4 cds g17178.t4.CDS1 12729721 12729800
chr_4 g17178 g17178.t4 exon g17178.t4.exon3 12730482 12730608
chr_4 g17178 g17178.t4 cds g17178.t4.CDS2 12730482 12730608
chr_4 g17178 g17178.t4 exon g17178.t4.exon4 12730787 12731185
chr_4 g17178 g17178.t4 cds g17178.t4.CDS3 12730787 12731185
chr_4 g17178 g17178.t4 exon g17178.t4.exon5 12731252 12731825
chr_4 g17178 g17178.t4 cds g17178.t4.CDS4 12731252 12731818
chr_4 g17178 g17178.t4 TSS g17178.t4 NA NA

Sequences

>g17178.t4 Gene=g17178 Length=1189
AAAAGGAATGCTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCAAATGG
TGGCAGAATATATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTCAAAAC
TTATGTTGAAACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTTGCATT
AGAATTTAATTATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTAGCAAG
ATATGGTGATAAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAAACAGG
AAGTGGTTTTCAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCAGCTGC
TGAAAGTGGAATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAATGTTGG
AACACTTGAGAATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATTTTATA
TTGGAATGCCGTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGAAAAAA
AGAATACCTTAGAATAGCTAAGGACTTTATGGATGCTGTAAATGAAGTGTTATGGGATGA
AGAAACTGGAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATTATTTCGT
TCCAACAAATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCGAACACAT
TGCCTCAAAAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTGGTGGTGT
TCCAACAACTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGGCACCAAC
GCAACATATTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGC
ACAAGATTATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGAGTGGAGC
TATGTATGAAAAGTATCTTGCAACAGAACTCGGCGGACATGGTGGAGGTGGTGAATATGA
AGTCCAAAAAGGCTTCGGATGGACAAATGGTGTAATTCTTGATCTCCTTGATCGTTATGG
CGAAGTTTTAAGTTCTTCAGTTAAACCATCAACATTAGGAAAATTATTTACTGGAATAAT
TGCAGTGTCATCAATAATGATTTCTAGAGTTAGCTGGTGAGAAATGACT

>g17178.t4 Gene=g17178 Length=390
MLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDVLALEF
NYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELKAAAES
GMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNETRKKEY
LRIAKDFMDAVNEVLWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDITKREHIAS
KVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVKEAQEKAQD
YAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILDLLDRYGEV
LSSSVKPSTLGKLFTGIIAVSSIMISRVSW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g17178.t4 Gene3D G3DSA:1.50.10.10 - 1 369 4.4E-131
2 g17178.t4 PANTHER PTHR23403 TREHALASE 1 359 1.9E-140
3 g17178.t4 PANTHER PTHR23403:SF1 TREHALASE 1 359 1.9E-140
7 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 12 30 1.0E-46
6 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 76 93 1.0E-46
9 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 111 128 1.0E-46
8 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 148 165 1.0E-46
4 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 191 207 1.0E-46
10 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 261 277 1.0E-46
5 g17178.t4 PRINTS PR00744 Glycosyl hydrolase family 37 signature 341 354 1.0E-46
1 g17178.t4 Pfam PF01204 Trehalase 1 358 5.1E-120
12 g17178.t4 ProSitePatterns PS00928 Trehalase signature 2. 268 277 -
11 g17178.t4 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 358 1.86E-113

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