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.t59 TSS g13300.t59 29008120 29008120
chr_1 g13300 g13300.t59 isoform g13300.t59 29008145 29009204
chr_1 g13300 g13300.t59 exon g13300.t59.exon1 29008145 29008906
chr_1 g13300 g13300.t59 cds g13300.t59.CDS1 29008145 29008534
chr_1 g13300 g13300.t59 exon g13300.t59.exon2 29009019 29009204
chr_1 g13300 g13300.t59 TTS g13300.t59 29009276 29009276

Sequences

>g13300.t59 Gene=g13300 Length=948
ATGACAATACTACACAAGCTAACTTTAAATCTCATTTTCACAGTCTTCGTTGTGAGTGCA
TTGAGAATTGTCGAACAATTAGATTTGAAACTTGAGCCACAAATGGAAGATTTAGAAAAA
TACTTGGAGGATTATGTGTCGAATAAACCATTCGCGTTATTACTCGATTATGACGGCACG
TTGGCTGCCATTCAACCACATCCAAATATGACATACATGACTGAATATACCAAAGAAGCG
CTATTGAACATCTCATCTTACCCCAACGTGTATTTAGCAGTTATATCCGGAAGGGGAGTT
GATGATGTGAAGACAAAAGTTGGTATCGATGGAATTGTTTATGCTGGAAATCATGGTCTC
GAAATTTTATATCCTAATGGAACTCGGTGAGATTTATTTTAAAATTTCCTAATTACATGT
AATTCTTATTTAATATCATTCTATAGTTACATACACGAAGTTCCAAGTGATGTTAAAGCA
AATTTTACAAAAATGGTGGAAGCTTTAGAAAATCTTAAAAGAGACGGAAGTTGGGTCGAA
AATAAGAAATTCTCAGTAACTTTTCACTTTAGAGCTGTGCCTGAAAAAGATCATGAGAAA
ATCAACAATGAAGCTAAGGAAATTATCGAGAAATTTGGATATCGAGCAAATCCAGCTCAT
TGCGCTATTGAAGCAAAACCACCGGTAGTATGGCATAAGGGCAAGGCAGCCGAATATATT
TTAAATCACTCATTTGGTAAAGATTGGAGAGAAAAAATTCAATTTATTGATATTTTTTTA
GCTAATTGATTATTTACAGATGTTTTCGAGTTACTTCAAGGAATTGGTGTTACTTTTAGA
GTCACAAAGGATCCAAACATTGTGACTAAAGCAACTTACAAAGTGCCATCAACTGAAGCT
GTTACAAAGGTTCTACAATGGGTCGATAAAAAATTTGGAAATAAATAA

>g13300.t59 Gene=g13300 Length=129
MTILHKLTLNLIFTVFVVSALRIVEQLDLKLEPQMEDLEKYLEDYVSNKPFALLLDYDGT
LAAIQPHPNMTYMTEYTKEALLNISSYPNVYLAVISGRGVDDVKTKVGIDGIVYAGNHGL
EILYPNGTR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g13300.t59 Gene3D G3DSA:3.40.50.1000 - 51 128 1.7E-14
2 g13300.t59 PANTHER PTHR43768 TREHALOSE 6-PHOSPHATE PHOSPHATASE 40 126 1.2E-16
3 g13300.t59 PANTHER PTHR43768:SF3 TREHALOSE 6-PHOSPHATE PHOSPHATASE 40 126 1.2E-16
1 g13300.t59 Pfam PF02358 Trehalose-phosphatase 54 128 1.8E-16
9 g13300.t59 Phobius SIGNAL_PEPTIDE Signal peptide region 1 22 -
10 g13300.t59 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 6 -
11 g13300.t59 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 7 18 -
12 g13300.t59 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 19 22 -
8 g13300.t59 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 23 129 -
5 g13300.t59 SUPERFAMILY SSF56784 HAD-like 52 127 5.11E-13
6 g13300.t59 SignalP_EUK SignalP-noTM SignalP-noTM 1 20 -
4 g13300.t59 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 24 -

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