Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 6-phosphogluconolactonase.

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 g11989 g11989.t4 TTS g11989.t4 20151800 20151800
chr_1 g11989 g11989.t4 isoform g11989.t4 20151867 20152730
chr_1 g11989 g11989.t4 exon g11989.t4.exon1 20151867 20152347
chr_1 g11989 g11989.t4 cds g11989.t4.CDS1 20151867 20152347
chr_1 g11989 g11989.t4 exon g11989.t4.exon2 20152413 20152730
chr_1 g11989 g11989.t4 cds g11989.t4.CDS2 20152413 20152651
chr_1 g11989 g11989.t4 TSS g11989.t4 20152795 20152795

Sequences

>g11989.t4 Gene=g11989 Length=799
ATGCCTGTGACACCTATAGTTTTGCACAATGAGGCATCTGTTCTTAATAAATTTCAAGAA
TTAATTGAAGAAATTGCCAATGAATCAATTAATGATCACGATCATTTTTACGTTGGTTTT
TCAGGTATGTAAAAAGAATAAATTTCAAAGTACACACAAGACATTGAAACAATTAACATT
CACTTTTTATATAGGCGGTTCTTTAGGAAAATATTTGTGTCAAATATTACCTAAAATCAA
AACTGATTGGAGCAAGTGGACAATTTTTTTCTGCGATGAGCGTTATGTTGATGAAAGTGA
TAACGAGTCAACATTTGGATTTTATAAAAACAATTTGATACCACTAGTTGCATTGACTGA
GCAGCAATTTATTTCAATCAATATTAACGATCCGATTGAAAAAGTTGCTGATGATTATGA
GAAAATAATAAGACAAAAATTTAATATGATTAAAGATGTTCCCTCATTTGATTGTTTACT
TCTTGGTGTTGGTCCAGATGGCCATACAGCTTCTTTATTTCCTGATCATCATATTTTGAA
TGAAAATGAACGTTTAATTACTTGGATCATTGATTCTCCTAAACCACCACCAAAAAGGAT
CACAATGACTTTTCCACTCATCAATAATGCAAAATATTCAATTTTTACTGTTCCCGGTAA
AGGCAAGGCTGAAATCATTAAAAAAATATTTGAAGATAAAATTGATTTCCCAGCTGCAAA
AGTTAATTCTAAAAAAGTCATTTGGCTGCTCGATCAAGATTCTGCATCCGAATGTTCAAT
TAAATTTGATACAGTCTAA

>g11989.t4 Gene=g11989 Length=239
MNQLMITIIFTLVFQVCKKNKFQSTHKTLKQLTFTFYIGGSLGKYLCQILPKIKTDWSKW
TIFFCDERYVDESDNESTFGFYKNNLIPLVALTEQQFISININDPIEKVADDYEKIIRQK
FNMIKDVPSFDCLLLGVGPDGHTASLFPDHHILNENERLITWIIDSPKPPPKRITMTFPL
INNAKYSIFTVPGKGKAEIIKKIFEDKIDFPAAKVNSKKVIWLLDQDSASECSIKFDTV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g11989.t4 CDD cd01400 6PGL 39 224 1.84456E-72
4 g11989.t4 Gene3D G3DSA:3.40.50.1360 - 25 232 3.2E-61
2 g11989.t4 PANTHER PTHR11054 6-PHOSPHOGLUCONOLACTONASE 39 232 2.7E-50
1 g11989.t4 Pfam PF01182 Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase 39 222 5.3E-56
7 g11989.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
8 g11989.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
9 g11989.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 14 -
10 g11989.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
6 g11989.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 239 -
3 g11989.t4 SUPERFAMILY SSF100950 NagB/RpiA/CoA transferase-like 39 233 4.12E-54
5 g11989.t4 TIGRFAM TIGR01198 pgl: 6-phosphogluconolactonase 38 229 4.7E-57

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:0006098 pentose-phosphate shunt BP
GO:0017057 6-phosphogluconolactonase activity MF
GO:0005975 carbohydrate 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. There were no conditions that were differentially expressed