Gene loci information

Transcript annotation

  • This transcript has been annotated as Trehalose-6-phosphate phosphatase.

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_1 g13300 g13300.t15 isoform g13300.t15 29007914 29009204
chr_1 g13300 g13300.t15 exon g13300.t15.exon1 29007914 29007941
chr_1 g13300 g13300.t15 exon g13300.t15.exon2 29008121 29008530
chr_1 g13300 g13300.t15 exon g13300.t15.exon3 29008605 29008906
chr_1 g13300 g13300.t15 cds g13300.t15.CDS1 29008637 29008906
chr_1 g13300 g13300.t15 exon g13300.t15.exon4 29008971 29009004
chr_1 g13300 g13300.t15 cds g13300.t15.CDS2 29008971 29009004
chr_1 g13300 g13300.t15 exon g13300.t15.exon5 29009056 29009204
chr_1 g13300 g13300.t15 cds g13300.t15.CDS3 29009056 29009204
chr_1 g13300 g13300.t15 TTS g13300.t15 29009276 29009276
chr_1 g13300 g13300.t15 TSS g13300.t15 NA NA

Sequences

>g13300.t15 Gene=g13300 Length=923
ACTATTATATTTCTTTCTGTTTTTTGTGATCACTCTCTGATAATAATAATTCATGACAAT
ACTACACAAGCTAACTTTAAATCTCATTTTCACAGTCTTCGTTGTGAGTGCATTGAGAAT
TGTCGAACAATTAGATTTGAAACTTGAGCCACAAATGGAAGATTTAGAAAAATACTTGGA
GGATTATGTGTCGAATAAACCATTCGCGTTATTACTCGATTATGACGGCACGTTGGCTGC
CATTCAACCACATCCAAATATGACATACATGACTGAATATACCAAAGAAGCGCTATTGAA
CATCTCATCTTACCCCAACGTGTATTTAGCAGTTATATCCGGAAGGGGAGTTGATGATGT
GAAGACAAAAGTTGGTATCGATGGAATTGTTTATGCTGGAAATCATGGTCTCGAAATTTT
ATATCCTAATGGAACTCGTTCCAAGTGATGTTAAAGCAAATTTTACAAAAATGGTGGAAG
CTTTAGAAAATCTTAAAAGAGACGGAAGTTGGGTCGAAAATAAGAAATTCTCAGTAACTT
TTCACTTTAGAGCTGTGCCTGAAAAAGATCATGAGAAAATCAACAATGAAGCTAAGGAAA
TTATCGAGAAATTTGGATATCGAGCAAATCCAGCTCATTGCGCTATTGAAGCAAAACCAC
CGGTAGTATGGCATAAGGGCAAGGCAGCCGAATATATTTTAAATCACTCATTTGGTAAAG
ATTGGAGAGAAAAAATTCAAGTTGTGTTTGCTGGCGATGATACAACCGATGAAGATGTTT
TCGAGTTACTTCAAGGAATTGGTGTTACTTTTAGAGTCACAAAGGATCCAAACATTGTGA
CTAAAGCAACTTACAAAGTGCCATCAACTGAAGCTGTTACAAAGGTTCTACAATGGGTCG
ATAAAAAATTTGGAAATAAATAA

>g13300.t15 Gene=g13300 Length=150
MVEALENLKRDGSWVENKKFSVTFHFRAVPEKDHEKINNEAKEIIEKFGYRANPAHCAIE
AKPPVVWHKGKAAEYILNHSFGKDWREKIQVVFAGDDTTDEDVFELLQGIGVTFRVTKDP
NIVTKATYKVPSTEAVTKVLQWVDKKFGNK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g13300.t15 Gene3D G3DSA:3.30.70.1020 - 10 64 0
5 g13300.t15 Gene3D G3DSA:3.40.50.1000 - 66 130 0
2 g13300.t15 PANTHER PTHR43768 TREHALOSE 6-PHOSPHATE PHOSPHATASE 11 141 0
3 g13300.t15 PANTHER PTHR43768:SF3 TREHALOSE 6-PHOSPHATE PHOSPHATASE 11 141 0
1 g13300.t15 Pfam PF02358 Trehalose-phosphatase 11 130 0
4 g13300.t15 SUPERFAMILY SSF56784 HAD-like 10 143 0
7 g13300.t15 TIGRFAM TIGR00685 T6PP: trehalose-phosphatase 7 143 0

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:0005992 trehalose biosynthetic process BP
GO:0003824 catalytic activity MF

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. There were no conditions that were differentially expressed