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.t5 TTS g17178.t5 12729498 12729498
chr_4 g17178 g17178.t5 isoform g17178.t5 12729651 12733505
chr_4 g17178 g17178.t5 exon g17178.t5.exon1 12729651 12729653
chr_4 g17178 g17178.t5 exon g17178.t5.exon2 12729715 12729800
chr_4 g17178 g17178.t5 cds g17178.t5.CDS1 12729721 12729800
chr_4 g17178 g17178.t5 exon g17178.t5.exon3 12730482 12730608
chr_4 g17178 g17178.t5 cds g17178.t5.CDS2 12730482 12730608
chr_4 g17178 g17178.t5 exon g17178.t5.exon4 12730787 12731185
chr_4 g17178 g17178.t5 cds g17178.t5.CDS3 12730787 12731185
chr_4 g17178 g17178.t5 exon g17178.t5.exon5 12731252 12731830
chr_4 g17178 g17178.t5 cds g17178.t5.CDS4 12731252 12731830
chr_4 g17178 g17178.t5 exon g17178.t5.exon6 12732419 12732642
chr_4 g17178 g17178.t5 cds g17178.t5.CDS5 12732419 12732642
chr_4 g17178 g17178.t5 exon g17178.t5.exon7 12732703 12732965
chr_4 g17178 g17178.t5 cds g17178.t5.CDS6 12732703 12732925
chr_4 g17178 g17178.t5 exon g17178.t5.exon8 12733461 12733505
chr_4 g17178 g17178.t5 TSS g17178.t5 NA NA

Sequences

>g17178.t5 Gene=g17178 Length=1726
TCACAATGATGTATATTATCATCCAACTGCTGTTGGTAGTAATGGCGAAGTCTACTGTCA
TGGAAATTTATTACACACAGTACAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGT
TGATATGAAACTCAAAAATCCACCACATGAGACTATACAGCTTTTTAATAATTTTATGGC
TGATTTTCCTGATGGTTTACCCGACACTGATAAACTTCGACAATGGGTTGAAGAACATTT
TGATGAACCTGGTTCTGAATTTGAGCAATGGACGCCCGATGATTTTCAAAAATCACCAAA
ATTCTTAGATAAAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAAT
TTGGTTAGAATTGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTC
AATAATTCATGTCGATAATCCAGTAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTA
TTGGGATTCTTATTGGGTCATTCGAGGTTTACTGCTGTGTGAAATGTACAATACAACAAA
AGGAATGCTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCAAATGGTGG
CAGAATATATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTA
TGTTGAAACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTTGCATTAGA
ATTTAATTATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTAGCAAGATA
TGGTGATAAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAG
TGGTTTTCAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGA
AAGTGGAATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAATGTTGGAAC
ACTTGAGAATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATTTTATATTG
GAATGCCGTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGAAAAAAAGA
ATACCTTAGAATAGCTAAGGACTTTATGGATGCTGTAAATGAAGTGTTATGGGATGAAGA
AACTGGAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATTATTTCGTTCC
AACAAATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCGAACACATTGC
CTCAAAAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTGGTGGTGTTCC
AACAACTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGGCACCAACGCA
ACATATTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGCACA
AGATTATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGAGTGGAGCTAT
GTATGAAAAGTATCTTGCAACAGAACTCGGCGGACATGGTGGAGGTGGTGAATATGAAGT
CCAAAAAGGCTTCGGATGGACAAATGGTGTAATTCTTGATCTCCTTGATCGTTATGGCGA
AGTTTTAAGTTCTTCAGTTAAACCATCAACATTAGGAAAATTATTTACTGGAATAATTGC
AGTGTCATCAATAATGATTTCTAGAGTTAGCTGGTGAGAAATGACT

>g17178.t5 Gene=g17178 Length=543
MARLYNDSKTFVDMKLKNPPHETIQLFNNFMADFPDGLPDTDKLRQWVEEHFDEPGSEFE
QWTPDDFQKSPKFLDKISDKNFRDFASELNGIWLELGRKMKPDVKINEDHYSIIHVDNPV
IVPGGRFREFYYWDSYWVIRGLLLCEMYNTTKGMLENFMSIVTRYGFIPNGGRIYYSLRS
QPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLANHTVQVKGHTLARYGDKSNGPR
PESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFSSRWFINDEGTNVGTLENLKTRY
IIPVELNAILYWNAVIIAEFYAIAGNETRKKEYLRIAKDFMDAVNEVLWDEETGAWLDYD
LINEKHRNYFVPTNLSPLWMKCYDITKREHIASKVLQYIDNLKLDDYPGGVPTTLMNSGE
QWDWPNVWAPTQHILIVGLENLGVKEAQEKAQDYAQRWVHGNYIAFKESGAMYEKYLATE
LGGHGGGGEYEVQKGFGWTNGVILDLLDRYGEVLSSSVKPSTLGKLFTGIIAVSSIMISR
VSW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g17178.t5 Gene3D G3DSA:1.50.10.10 - 1 522 1.3E-185
2 g17178.t5 PANTHER PTHR23403 TREHALASE 1 512 2.3E-208
3 g17178.t5 PANTHER PTHR23403:SF1 TREHALASE 1 512 2.3E-208
4 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 165 183 7.6E-46
6 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 229 246 7.6E-46
5 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 264 281 7.6E-46
8 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 301 318 7.6E-46
9 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 344 360 7.6E-46
10 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 414 430 7.6E-46
7 g17178.t5 PRINTS PR00744 Glycosyl hydrolase family 37 signature 494 507 7.6E-46
1 g17178.t5 Pfam PF01204 Trehalase 4 511 3.3E-167
12 g17178.t5 ProSitePatterns PS00927 Trehalase signature 1. 123 136 -
13 g17178.t5 ProSitePatterns PS00928 Trehalase signature 2. 421 430 -
11 g17178.t5 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 511 4.54E-150

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

Pathway

  • This transcript belongs to the following pathways

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