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.t22 TTS g17178.t22 12730043 12730043
chr_4 g17178 g17178.t22 isoform g17178.t22 12730044 12733505
chr_4 g17178 g17178.t22 exon g17178.t22.exon1 12730044 12730608
chr_4 g17178 g17178.t22 cds g17178.t22.CDS1 12730453 12730608
chr_4 g17178 g17178.t22 exon g17178.t22.exon2 12730787 12731185
chr_4 g17178 g17178.t22 cds g17178.t22.CDS2 12730787 12731185
chr_4 g17178 g17178.t22 exon g17178.t22.exon3 12731252 12731830
chr_4 g17178 g17178.t22 cds g17178.t22.CDS3 12731252 12731830
chr_4 g17178 g17178.t22 exon g17178.t22.exon4 12732419 12732642
chr_4 g17178 g17178.t22 cds g17178.t22.CDS4 12732419 12732642
chr_4 g17178 g17178.t22 exon g17178.t22.exon5 12732703 12732960
chr_4 g17178 g17178.t22 cds g17178.t22.CDS5 12732703 12732960
chr_4 g17178 g17178.t22 exon g17178.t22.exon6 12733461 12733505
chr_4 g17178 g17178.t22 cds g17178.t22.CDS6 12733461 12733464
chr_4 g17178 g17178.t22 TSS g17178.t22 NA NA

Sequences

>g17178.t22 Gene=g17178 Length=2070
TCACAATGATGTATATTATCATCCAACTGCTGTTGGTAGTAATGGTCTACTGTCATGGAA
ATTTATTACACACAGTACAGATGGCTCGACTTTATAATGATTCAAAGACTTTTGTTGATA
TGAAACTCAAAAATCCACCACATGAGACTATACAGCTTTTTAATAATTTTATGGCTGATT
TTCCTGATGGTTTACCCGACACTGATAAACTTCGACAATGGGTTGAAGAACATTTTGATG
AACCTGGTTCTGAATTTGAGCAATGGACGCCCGATGATTTTCAAAAATCACCAAAATTCT
TAGATAAAATAAGTGATAAAAACTTCCGTGATTTTGCAAGTGAATTAAATGGAATTTGGT
TAGAATTGGGAAGAAAAATGAAGCCAGATGTAAAAATTAATGAAGATCACTATTCAATAA
TTCATGTCGATAATCCAGTAATTGTGCCAGGTGGAAGATTTAGAGAATTCTATTATTGGG
ATTCTTATTGGGTCATTCGAGGTTTACTGCTGTGTGAAATGTACAATACAACAAAAGGAA
TGCTTGAAAATTTCATGTCAATAGTAACACGTTACGGTTTTATTCCAAATGGTGGCAGAA
TATATTATTCGTTACGTTCTCAGCCGCCACTTCTTGCACCAATGGTCAAAACTTATGTTG
AAACCACAAATGATATTGATTTTGCTGTAAAATATGTTGATGTACTTGCATTAGAATTTA
ATTATTGGTTGGCAAATCACACAGTACAAGTTAAAGGACACACATTAGCAAGATATGGTG
ATAAATCAAATGGACCAAGACCAGAAAGTTATAGAGAAGATATAGAAACAGGAAGTGGTT
TTCAAAGTGCAAAGGACAAAGAAGAACATTATGCAGAATTGAAAGCAGCTGCTGAAAGTG
GAATGGACTTTTCATCGCGATGGTTTATCAATGATGAAGGCACAAATGTTGGAACACTTG
AGAATTTAAAGACAAGATATATCATACCAGTTGAATTAAATGCTATTTTATATTGGAATG
CCGTCATTATTGCTGAATTTTATGCTATTGCTGGCAATGAAACTAGAAAAAAAGAATACC
TTAGAATAGCTAAGGACTTTATGGATGCTGTAAATGAAGTGTTATGGGATGAAGAAACTG
GAGCATGGCTCGATTATGATCTGATAAATGAAAAACACAGAAATTATTTCGTTCCAACAA
ATCTTTCGCCACTTTGGATGAAATGCTATGATATAACAAAACGCGAACACATTGCCTCAA
AAGTCTTACAGTATATTGATAATTTAAAACTTGATGATTATCCTGGTGGTGTTCCAACAA
CTCTCATGAACAGTGGTGAACAATGGGATTGGCCAAATGTATGGGCACCAACGCAACATA
TTTTAATTGTTGGATTAGAAAATCTTGGTGTTAAAGAGGCTCAAGAAAAAGCACAAGATT
ATGCACAACGATGGGTGCATGGCAATTATATTGCATTCAAAGAGAGTGGAGCTATGTATG
AAAAGTATCTTGCAACAGAACTCGGCGGACATGGTGGAGGTGGTGAATATGAAGTCCAAA
AAGGCTTCGGATGGACAAATGGTGTAATTCTTGATCTCCTTGATCGTTATGGCGAAGTTT
TAAGTTCTTCAGGTGAAGAATCAAATTTGATAAAGGAATAAAAAACTTTGCGAATCATTT
TCATCACACAAAAAAAAATTTCGTGCACATTTGTCCTATAATTATACACTGACACCCACC
ACACCACCATTTCATCATCTTTGTTATTTGTTAATGTGAAGTCAAAAAAAAAGAATTTCT
TAGGTCGTTGAGATAAAATTTAGGAAATTTGTTGTATCTAAAAATAAAATCATTCATTCA
ATTTAAGTTTCTGAGTTAGTTTAGCTGGTGATAATTTTTTTTGTTTAATTTCTCTCTCAT
TTATGACGTAAGCTTTAATGACACAAATTAAAATAGTATATAGATGAACTACCGCGATGA
AAAAAAGTTATGAGTGATAATCAATTAATTGTGTCTTTGCACTTCATATTAAATTTATTT
CATAATGACGACAAATTTAAATAAAAATTC

>g17178.t22 Gene=g17178 Length=539
MVYCHGNLLHTVQMARLYNDSKTFVDMKLKNPPHETIQLFNNFMADFPDGLPDTDKLRQW
VEEHFDEPGSEFEQWTPDDFQKSPKFLDKISDKNFRDFASELNGIWLELGRKMKPDVKIN
EDHYSIIHVDNPVIVPGGRFREFYYWDSYWVIRGLLLCEMYNTTKGMLENFMSIVTRYGF
IPNGGRIYYSLRSQPPLLAPMVKTYVETTNDIDFAVKYVDVLALEFNYWLANHTVQVKGH
TLARYGDKSNGPRPESYREDIETGSGFQSAKDKEEHYAELKAAAESGMDFSSRWFINDEG
TNVGTLENLKTRYIIPVELNAILYWNAVIIAEFYAIAGNETRKKEYLRIAKDFMDAVNEV
LWDEETGAWLDYDLINEKHRNYFVPTNLSPLWMKCYDITKREHIASKVLQYIDNLKLDDY
PGGVPTTLMNSGEQWDWPNVWAPTQHILIVGLENLGVKEAQEKAQDYAQRWVHGNYIAFK
ESGAMYEKYLATELGGHGGGGEYEVQKGFGWTNGVILDLLDRYGEVLSSSGEESNLIKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g17178.t22 Gene3D G3DSA:1.50.10.10 - 1 536 2.4E-193
2 g17178.t22 PANTHER PTHR23403 TREHALASE 2 526 2.2E-215
3 g17178.t22 PANTHER PTHR23403:SF1 TREHALASE 2 526 2.2E-215
5 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 178 196 7.3E-46
8 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 242 259 7.3E-46
7 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 277 294 7.3E-46
4 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 314 331 7.3E-46
6 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 357 373 7.3E-46
10 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 427 443 7.3E-46
9 g17178.t22 PRINTS PR00744 Glycosyl hydrolase family 37 signature 507 520 7.3E-46
1 g17178.t22 Pfam PF01204 Trehalase 17 524 3.2E-167
12 g17178.t22 ProSitePatterns PS00927 Trehalase signature 1. 136 149 -
13 g17178.t22 ProSitePatterns PS00928 Trehalase signature 2. 434 443 -
11 g17178.t22 SUPERFAMILY SSF48208 Six-hairpin glycosidases 1 524 2.57E-156

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.

Raw TPM values