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.t19 TTS g17178.t19 12730043 12730043
chr_4 g17178 g17178.t19 isoform g17178.t19 12730044 12733505
chr_4 g17178 g17178.t19 exon g17178.t19.exon1 12730044 12730608
chr_4 g17178 g17178.t19 cds g17178.t19.CDS1 12730453 12730608
chr_4 g17178 g17178.t19 exon g17178.t19.exon2 12730787 12731185
chr_4 g17178 g17178.t19 cds g17178.t19.CDS2 12730787 12731185
chr_4 g17178 g17178.t19 exon g17178.t19.exon3 12731252 12731830
chr_4 g17178 g17178.t19 cds g17178.t19.CDS3 12731252 12731830
chr_4 g17178 g17178.t19 exon g17178.t19.exon4 12732503 12732642
chr_4 g17178 g17178.t19 cds g17178.t19.CDS4 12732503 12732642
chr_4 g17178 g17178.t19 exon g17178.t19.exon5 12732703 12732965
chr_4 g17178 g17178.t19 cds g17178.t19.CDS5 12732703 12732925
chr_4 g17178 g17178.t19 exon g17178.t19.exon6 12733461 12733505
chr_4 g17178 g17178.t19 TSS g17178.t19 NA NA

Sequences

>g17178.t19 Gene=g17178 Length=1991
TCACAATGATGTATATTATCATCCAACTGCTGTTGGTAGTAATGGCGAAGTCTACTGTCA
TGGAAATTTATTACACACAGTACAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGT
TGATATGAAACTCAAAAATCCACCACATGAGACTATACAGCTTTTTAATAATTTTATGGC
TGATTTTCCTGATGGTTTACCCGACACTGATAAACTTCGACAATGGGTTGAAGAACATTT
TGATGAACCTGGTTCTGAATTTGAGCAATGGACGCCCGATGATTTTCAAAAATCACCAAA
ATTCTTAGATAAAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAAT
TTGGTTAGAATTGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTC
AATAATTCATGTCGATAATCCAGTAATTACAACAAAAGGAATGCTTGAAAATTTCATGTC
AATAGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAATATATTATTCGTTACGTTC
TCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTGAAACCACAAATGATATTGA
TTTTGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTAATTATTGGTTGGCAAATCA
CACAGTACAAGTTAAAGGACACACATTAGCAAGATATGGTGATAAATCAAATGGACCAAG
ACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTTTTCAAAGTGCAAAGGACAA
AGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTGGAATGGACTTTTCATCGCG
ATGGTTTATCAATGATGAAGGCACAAATGTTGGAACACTTGAGAATTTAAAGACAAGATA
TATCATACCAGTTGAATTAAATGCTATTTTATATTGGAATGCCGTCATTATTGCTGAATT
TTATGCTATTGCTGGCAATGAAACTAGAAAAAAAGAATACCTTAGAATAGCTAAGGACTT
TATGGATGCTGTAAATGAAGTGTTATGGGATGAAGAAACTGGAGCATGGCTCGATTATGA
TCTGATAAATGAAAAACACAGAAATTATTTCGTTCCAACAAATCTTTCGCCACTTTGGAT
GAAATGCTATGATATAACAAAACGCGAACACATTGCCTCAAAAGTCTTACAGTATATTGA
TAATTTAAAACTTGATGATTATCCTGGTGGTGTTCCAACAACTCTCATGAACAGTGGTGA
ACAATGGGATTGGCCAAATGTATGGGCACCAACGCAACATATTTTAATTGTTGGATTAGA
AAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGCACAAGATTATGCACAACGATGGGTGCA
TGGCAATTATATTGCATTCAAAGAGAGTGGAGCTATGTATGAAAAGTATCTTGCAACAGA
ACTCGGCGGACATGGTGGAGGTGGTGAATATGAAGTCCAAAAAGGCTTCGGATGGACAAA
TGGTGTAATTCTTGATCTCCTTGATCGTTATGGCGAAGTTTTAAGTTCTTCAGGTGAAGA
ATCAAATTTGATAAAGGAATAAAAAACTTTGCGAATCATTTTCATCACACAAAAAAAAAT
TTCGTGCACATTTGTCCTATAATTATACACTGACACCCACCACACCACCATTTCATCATC
TTTGTTATTTGTTAATGTGAAGTCAAAAAAAAAGAATTTCTTAGGTCGTTGAGATAAAAT
TTAGGAAATTTGTTGTATCTAAAAATAAAATCATTCATTCAATTTAAGTTTCTGAGTTAG
TTTAGCTGGTGATAATTTTTTTTGTTTAATTTCTCTCTCATTTATGACGTAAGCTTTAAT
GACACAAATTAAAATAGTATATAGATGAACTACCGCGATGAAAAAAAGTTATGAGTGATA
ATCAATTAATTGTGTCTTTGCACTTCATATTAAATTTATTTCATAATGACGACAAATTTA
AATAAAAATTC

>g17178.t19 Gene=g17178 Length=498
MARLYNDSKTFVDMKLKNPPHETIQLFNNFMADFPDGLPDTDKLRQWVEEHFDEPGSEFE
QWTPDDFQKSPKFLDKISDKNFRDFASELNGIWLELGRKMKPDVKINEDHYSIIHVDNPV
ITTKGMLENFMSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDV
LALEFNYWLANHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELK
AAAESGMDFSSRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNET
RKKEYLRIAKDFMDAVNEVLWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDITKR
EHIASKVLQYIDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVKEAQ
EKAQDYAQRWVHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILDLLD
RYGEVLSSSGEESNLIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g17178.t19 Gene3D G3DSA:1.50.10.10 - 1 495 1.7E-156
4 g17178.t19 PANTHER PTHR23403 TREHALASE 1 121 1.6E-177
6 g17178.t19 PANTHER PTHR23403:SF1 TREHALASE 1 121 1.6E-177
3 g17178.t19 PANTHER PTHR23403 TREHALASE 122 485 1.6E-177
5 g17178.t19 PANTHER PTHR23403:SF1 TREHALASE 122 485 1.6E-177
10 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 137 155 4.5E-46
13 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 201 218 4.5E-46
12 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 236 253 4.5E-46
9 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 273 290 4.5E-46
7 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 316 332 4.5E-46
8 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 386 402 4.5E-46
11 g17178.t19 PRINTS PR00744 Glycosyl hydrolase family 37 signature 466 479 4.5E-46
1 g17178.t19 Pfam PF01204 Trehalase 4 121 1.5E-16
2 g17178.t19 Pfam PF01204 Trehalase 122 483 2.2E-121
15 g17178.t19 ProSitePatterns PS00928 Trehalase signature 2. 393 402 -
14 g17178.t19 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 483 1.08E-130

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