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.t25 TTS g17178.t25 12730043 12730043
chr_4 g17178 g17178.t25 isoform g17178.t25 12730152 12733505
chr_4 g17178 g17178.t25 exon g17178.t25.exon1 12730152 12730608
chr_4 g17178 g17178.t25 cds g17178.t25.CDS1 12730453 12730608
chr_4 g17178 g17178.t25 exon g17178.t25.exon2 12730787 12731185
chr_4 g17178 g17178.t25 cds g17178.t25.CDS2 12730787 12731185
chr_4 g17178 g17178.t25 exon g17178.t25.exon3 12731252 12731830
chr_4 g17178 g17178.t25 cds g17178.t25.CDS3 12731252 12731803
chr_4 g17178 g17178.t25 exon g17178.t25.exon4 12732415 12732642
chr_4 g17178 g17178.t25 exon g17178.t25.exon5 12732703 12732965
chr_4 g17178 g17178.t25 exon g17178.t25.exon6 12733461 12733505
chr_4 g17178 g17178.t25 TSS g17178.t25 12745583 12745583

Sequences

>g17178.t25 Gene=g17178 Length=1971
TCACAATGATGTATATTATCATCCAACTGCTGTTGGTAGTAATGGCGAAGTCTACTGTCA
TGGAAATTTATTACACACAGTACAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGT
TGATATGAAACTCAAAAATCCACCACATGAGACTATACAGCTTTTTAATAATTTTATGGC
TGATTTTCCTGATGGTTTACCCGACACTGATAAACTTCGACAATGGGTTGAAGAACATTT
TGATGAACCTGGTTCTGAATTTGAGCAATGGACGCCCGATGATTTTCAAAAATCACCAAA
ATTCTTAGATAAAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAAT
TTGGTTAGAATTGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTC
AATAATTCATGTCGATAATCCAGTAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTA
TTGGGATTCTTATTGGGTCATTCGAGGTTTACTGCTGTGTGAAATGTACAATGTAAACAA
CAAAAGGAATGCTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCAAATG
GTGGCAGAATATATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTCAAAA
CTTATGTTGAAACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTTGCAT
TAGAATTTAATTATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTAGCAA
GATATGGTGATAAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAAACAG
GAAGTGGTTTTCAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCAGCTG
CTGAAAGTGGAATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAATGTTG
GAACACTTGAGAATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATTTTAT
ATTGGAATGCCGTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGAAAAA
AAGAATACCTTAGAATAGCTAAGGACTTTATGGATGCTGTAAATGAAGTGTTATGGGATG
AAGAAACTGGAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATTATTTCG
TTCCAACAAATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCGAACACA
TTGCCTCAAAAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTGGTGGTG
TTCCAACAACTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGGCACCAA
CGCAACATATTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAG
CACAAGATTATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGAGTGGAG
CTATGTATGAAAAGTATCTTGCAACAGAACTCGGCGGACATGGTGGAGGTGGTGAATATG
AAGTCCAAAAAGGCTTCGGATGGACAAATGGTGTAATTCTTGATCTCCTTGATCGTTATG
GCGAAGTTTTAAGTTCTTCAGGTGAAGAATCAAATTTGATAAAGGAATAAAAAACTTTGC
GAATCATTTTCATCACACAAAAAAAAATTTCGTGCACATTTGTCCTATAATTATACACTG
ACACCCACCACACCACCATTTCATCATCTTTGTTATTTGTTAATGTGAAGTCAAAAAAAA
AGAATTTCTTAGGTCGTTGAGATAAAATTTAGGAAATTTGTTGTATCTAAAAATAAAATC
ATTCATTCAATTTAAGTTTCTGAGTTAGTTTAGCTGGTGATAATTTTTTTTGTTTAATTT
CTCTCTCATTTATGACGTAAGCTTTAATGACACAAATTAAAATAGTATATA

>g17178.t25 Gene=g17178 Length=368
MSIVTRYGFIPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLA
NHTVQVKGHTLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFS
SRWFINDEGTNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNETRKKEYLRIAK
DFMDAVNEVLWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDITKREHIASKVLQY
IDNLKLDDYPGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVKEAQEKAQDYAQRW
VHGNYIAFKESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILDLLDRYGEVLSSSG
EESNLIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g17178.t25 Gene3D G3DSA:1.50.10.10 - 1 365 6.7E-128
14 g17178.t25 MobiDBLite mobidb-lite consensus disorder prediction 76 97 -
13 g17178.t25 MobiDBLite mobidb-lite consensus disorder prediction 80 97 -
2 g17178.t25 PANTHER PTHR23403 TREHALASE 1 355 2.2E-137
3 g17178.t25 PANTHER PTHR23403:SF1 TREHALASE 1 355 2.2E-137
5 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 7 25 7.2E-47
9 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 71 88 7.2E-47
8 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 106 123 7.2E-47
7 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 143 160 7.2E-47
6 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 186 202 7.2E-47
10 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 256 272 7.2E-47
4 g17178.t25 PRINTS PR00744 Glycosyl hydrolase family 37 signature 336 349 7.2E-47
1 g17178.t25 Pfam PF01204 Trehalase 2 353 7.9E-117
12 g17178.t25 ProSitePatterns PS00928 Trehalase signature 2. 263 272 -
11 g17178.t25 SUPERFAMILY SSF48208 Six-hairpin glycosidases 3 353 4.45E-111

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