Gene loci information

Transcript annotation

  • This transcript has been annotated as 6-phosphogluconate dehydrogenase, decarboxylating.

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_3 g3365 g3365.t15 TTS g3365.t15 24877436 24877436
chr_3 g3365 g3365.t15 isoform g3365.t15 24878068 24879862
chr_3 g3365 g3365.t15 exon g3365.t15.exon1 24878068 24878453
chr_3 g3365 g3365.t15 cds g3365.t15.CDS1 24878070 24878453
chr_3 g3365 g3365.t15 exon g3365.t15.exon2 24878524 24878810
chr_3 g3365 g3365.t15 cds g3365.t15.CDS2 24878524 24878616
chr_3 g3365 g3365.t15 exon g3365.t15.exon3 24879238 24879339
chr_3 g3365 g3365.t15 exon g3365.t15.exon4 24879642 24879757
chr_3 g3365 g3365.t15 exon g3365.t15.exon5 24879855 24879862
chr_3 g3365 g3365.t15 TSS g3365.t15 24879992 24879992

Sequences

>g3365.t15 Gene=g3365 Length=899
ATGGCACAAAAAGCTGATATCGCATTAATTGGGCTCGCAGTGATGGGTCAAAATTTGATA
CTTAATATGGATTCAAAAGGTTTCGTTGTGTGTGCATTTAATCGTACTGTCGATAAGGTG
AGCACAATTTTTGGAAAATGAGGCAAAGGGAACAAAAATAATCGGTGCAACATCAATGGA
AGATATGGTTAGCAAATTGAAGACTCCTCGACGTGTTATGCTTCTGCTGGGAGTGCTGTT
GATGATTTTATCAAACAATTAACTCCATTACTTTCACCTGGTGATATCATCATTGATGGT
GGAAATTCTGAATATCAAGATACTGCAAGACGTGTTGAAGAATGCAAAAAGAATAAATTA
TTGTTTGTTGGTTCAGGTGTAAGCGGAGGTGAAGAAGGTGCACGTTATGGACCATCATTA
ATGCCTGGCGGTAATCCTGAAGCTTGGCCACATATTAAAGACATTTTCCAATCAATCTGT
GCACGTGCTGACAATGAACCTTGTTGTGAGTGGGTCGGTGAAGGCGGTAGCGGTCATTTT
GTTAAAATGGTACATAATGGAATTGAGTATGGTGATATGCAACTAATTTGTGAAGCATAT
GATTTAATGAAAGCAATGGGTATGAGTCAAAAAGAAATGGCTGATGCATTTACTGAATGG
AACAAAGGCGAACTTGATTCTTTCCTCATTGAAATTACCAGTAGTATTCTCAATTATAAA
GATAAGGAAGGATATTTGCTTGAACGTATTCGTGACACTGCTGGTCAAAAAGGTACTGGG
AAATGGACTGCAATTGCTGCTCTTCAATACGGTGTACCCGTTACTCTAATTGGTGAAGCT
GTCTTCTCTCGTTGCTTATCTGCTCTTAAAAGTGAACGAGTTGCTGCAAGCAAAGTACT

>g3365.t15 Gene=g3365 Length=159
MPGGNPEAWPHIKDIFQSICARADNEPCCEWVGEGGSGHFVKMVHNGIEYGDMQLICEAY
DLMKAMGMSQKEMADAFTEWNKGELDSFLIEITSSILNYKDKEGYLLERIRDTAGQKGTG
KWTAIAALQYGVPVTLIGEAVFSRCLSALKSERVAASKV

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g3365.t15 Gene3D G3DSA:3.40.50.720 - 1 41 1.4E-7
10 g3365.t15 Gene3D G3DSA:1.10.1040.10 - 42 159 6.4E-54
2 g3365.t15 PANTHER PTHR11811 6-PHOSPHOGLUCONATE DEHYDROGENASE 1 159 4.0E-79
3 g3365.t15 PANTHER PTHR11811:SF25 6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING 1 159 4.0E-79
4 g3365.t15 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 27 55 4.5E-24
5 g3365.t15 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 106 133 4.5E-24
1 g3365.t15 Pfam PF00393 6-phosphogluconate dehydrogenase, C-terminal domain 38 158 1.4E-56
8 g3365.t15 ProSitePatterns PS00461 6-phosphogluconate dehydrogenase signature. 110 122 -
7 g3365.t15 SMART SM01350 6PGD_2 38 158 4.0E-23
6 g3365.t15 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 36 158 1.63E-55

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:0004616 phosphogluconate dehydrogenase (decarboxylating) activity MF
GO:0055114 NA NA
GO:0016491 oxidoreductase 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.

Raw TPM values