General information for g11989.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 6-phosphogluconolactonase.
Parent gene
- The parent gene g11989 is located on chr_1: 20152301..20153547 (- strand)
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.t3 | isoform | g11989.t3 | 20151793 | 20152334 |
| chr_1 | g11989 | g11989.t3 | exon | g11989.t3.exon1 | 20151793 | 20152334 |
| chr_1 | g11989 | g11989.t3 | TTS | g11989.t3 | 20151800 | 20151800 |
| chr_1 | g11989 | g11989.t3 | cds | g11989.t3.CDS1 | 20151867 | 20152220 |
| chr_1 | g11989 | g11989.t3 | TSS | g11989.t3 | 20152795 | 20152795 |
Sequences
>g11989.t3 Gene=g11989 Length=542
AATTTGATACCACTAGTTGCATTGACTGAGCAGCAATTTATTTCAATCAATATTAACGAT
CCGATTGAAAAAGTTGCTGATGATTATGAGAAAATAATAAGACAAAAATTTAATATGATT
AAAGATGTTCCCTCATTTGATTGTTTACTTCTTGGTGTTGGTCCAGATGGCCATACAGCT
TCTTTATTTCCTGATCATCATATTTTGAATGAAAATGAACGTTTAATTACTTGGATCATT
GATTCTCCTAAACCACCACCAAAAAGGATCACAATGACTTTTCCACTCATCAATAATGCA
AAATATTCAATTTTTACTGTTCCCGGTAAAGGCAAGGCTGAAATCATTAAAAAAATATTT
GAAGATAAAATTGATTTCCCAGCTGCAAAAGTTAATTCTAAAAAAGTCATTTGGCTGCTC
GATCAAGATTCTGCATCCGAATGTTCAATTAAATTTGATACAGTCTAAAAATATTCCCTA
ATTTTGTGAATAATAAAATTTTTATTTTTGATATAAAAAATTCATGTAAAAATGTATAAA
AG
>g11989.t3 Gene=g11989 Length=117
MIKDVPSFDCLLLGVGPDGHTASLFPDHHILNENERLITWIIDSPKPPPKRITMTFPLIN
NAKYSIFTVPGKGKAEIIKKIFEDKIDFPAAKVNSKKVIWLLDQDSASECSIKFDTV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11989.t3 | Gene3D | G3DSA:3.40.50.1360 | - | 1 | 110 | 0 |
| 2 | g11989.t3 | PANTHER | PTHR11054:SF22 | 6-PHOSPHOGLUCONOLACTONASE 3, CHLOROPLASTIC | 4 | 109 | 0 |
| 3 | g11989.t3 | PANTHER | PTHR11054 | 6-PHOSPHOGLUCONOLACTONASE | 4 | 109 | 0 |
| 1 | g11989.t3 | Pfam | PF01182 | Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase | 4 | 100 | 0 |
| 4 | g11989.t3 | SUPERFAMILY | SSF100950 | NagB/RpiA/CoA transferase-like | 2 | 111 | 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:0005975 | carbohydrate 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.
