General information for g3365.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 6-phosphogluconate dehydrogenase, decarboxylating.
Parent gene
- The parent gene g3365 is located on chr_3: 24878799..24880042 (- 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_3 | g3365 | g3365.t6 | TTS | g3365.t6 | 24877436 | 24877436 |
| chr_3 | g3365 | g3365.t6 | isoform | g3365.t6 | 24877527 | 24879862 |
| chr_3 | g3365 | g3365.t6 | exon | g3365.t6.exon1 | 24877527 | 24878453 |
| chr_3 | g3365 | g3365.t6 | cds | g3365.t6.CDS1 | 24877527 | 24878360 |
| chr_3 | g3365 | g3365.t6 | exon | g3365.t6.exon2 | 24878528 | 24878810 |
| chr_3 | g3365 | g3365.t6 | exon | g3365.t6.exon3 | 24879231 | 24879345 |
| chr_3 | g3365 | g3365.t6 | exon | g3365.t6.exon4 | 24879649 | 24879757 |
| chr_3 | g3365 | g3365.t6 | exon | g3365.t6.exon5 | 24879855 | 24879862 |
| chr_3 | g3365 | g3365.t6 | TSS | g3365.t6 | 24879992 | 24879992 |
Sequences
>g3365.t6 Gene=g3365 Length=1442
ATGGCACAAAAAGCTGATATCGCATTAATTGGGCTCGCAGTGATGGGTCAAAATTTGATA
CTTAATATGGATTCAAAAGGTTTCGTTGTGTGTGCATTTAATCGTACTGTCGATAAGGTC
AAGCAATTTTTGGAAAATGAGGCAAAGGGAACAAAAATAATCGGTGCAACATCAATGGAA
GATATGGTTAGCAAATTGAAGACTCCTCGACGTGTTATGCTTCTGGTCAAAGCTGGGAGT
GCTGTTGATGATTTTATCAAACAATTAACTCCATTACTTTCACCTGGTGATATCATCATT
GATGGTGGAAATTCTGAATATCAAGATACTGCAAGACGTGTTGAAGAATGCAAAAAGAAT
AAATTATTGTTTGTTGGTTCAGGTGTAAGCGGAGGTGAAGAAGGTGCACGTTATGGACCA
TCATTAATGCCTGGCGGTAATCCTGAAGCTTGGCCACATATTAAAGACATTTTCCAATCA
ATCTGTGCACGTGCTGACAATGAACCTTGTTGTGAGTCGGTGAAGGCGGTAGCGGTCATT
TTGTTAAAATGGTACATAATGGAATTGAGTATGGTGATATGCAACTAATTTGTGAAGCAT
ATGATTTAATGAAAGCAATGGGTATGAGTCAAAAAGAAATGGCTGATGCATTTACTGAAT
GGAACAAAGGCGAACTTGATTCTTTCCTCATTGAAATTACCAGTAGTATTCTCAATTATA
AAGATAAGGAAGGATATTTGCTTGAACGTATTCGTGACACTGCTGGTCAAAAAGGTACTG
GGAAATGGACTGCAATTGCTGCTCTTCAATACGGTGTACCCGTTACTCTAATTGGTGAAG
CTGTCTTCTCTCGTTGCTTATCTGCTCTTAAAAGTGAACGAGTTGCTGCAAGCAAAGTAC
TGAATGGTCCAGACACAAAACCAACTGTCGCTAACAAGGCTGAATTCTTGAATCACATTA
AGAATGCTCTTTATTGTGCAAAAATTGTTTCATATGCTCAAGGTTTTATGTTGATGCGTG
AGGCTGCAAAGGAAAATGGCTGGCACTTAAATTATGGCGGTATTGCTTTGATGTGGAGAG
GTGGTTGCATCATAAGAAGTGTATTCTTAGGAAACATTAAAGAAGCATTCACTCGTAATC
CACAATTATCAAATTTATTACTTGATGACTTTTTCAAGAATGCAATTACTAAAAATCAAA
ATTCCTGGCGACAAGTTGTATCAAATGCGACACTTTGGGGAATTCCAGTTCCAGCACTTT
CAGCTGCTCTTGCCTTCTTTGACGGCTATCGTGCTGATCGTCTTCCGGCTAATCTATTGC
AAGCACAAAGAGACTTCTTTGGTGCTCATACATATGAATTGTTAGGTCAAGAGGGCAAAT
TTGTTCATACAAATTGGACTGGAACTGGTGGAAATGTTAGTGCATCATCATATAATGCAT
AA
>g3365.t6 Gene=g3365 Length=277
MKAMGMSQKEMADAFTEWNKGELDSFLIEITSSILNYKDKEGYLLERIRDTAGQKGTGKW
TAIAALQYGVPVTLIGEAVFSRCLSALKSERVAASKVLNGPDTKPTVANKAEFLNHIKNA
LYCAKIVSYAQGFMLMREAAKENGWHLNYGGIALMWRGGCIIRSVFLGNIKEAFTRNPQL
SNLLLDDFFKNAITKNQNSWRQVVSNATLWGIPVPALSAALAFFDGYRADRLPANLLQAQ
RDFFGAHTYELLGQEGKFVHTNWTGTGGNVSASSYNA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g3365.t6 | Gene3D | G3DSA:1.10.1040.10 | - | 1 | 230 | 2.8E-91 |
| 9 | g3365.t6 | Gene3D | G3DSA:1.20.5.320 | - | 231 | 277 | 2.1E-25 |
| 2 | g3365.t6 | PANTHER | PTHR11811:SF50 | 6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING | 3 | 276 | 2.1E-119 |
| 3 | g3365.t6 | PANTHER | PTHR11811 | 6-PHOSPHOGLUCONATE DEHYDROGENASE | 3 | 276 | 2.1E-119 |
| 4 | g3365.t6 | PRINTS | PR00076 | 6-phosphogluconate dehydrogenase signature | 44 | 71 | 2.2E-20 |
| 5 | g3365.t6 | PRINTS | PR00076 | 6-phosphogluconate dehydrogenase signature | 152 | 174 | 2.2E-20 |
| 1 | g3365.t6 | Pfam | PF00393 | 6-phosphogluconate dehydrogenase, C-terminal domain | 2 | 263 | 3.1E-109 |
| 8 | g3365.t6 | ProSitePatterns | PS00461 | 6-phosphogluconate dehydrogenase signature. | 48 | 60 | - |
| 7 | g3365.t6 | SMART | SM01350 | 6PGD_2 | 1 | 264 | 8.4E-173 |
| 6 | g3365.t6 | SUPERFAMILY | SSF48179 | 6-phosphogluconate dehydrogenase C-terminal domain-like | 3 | 267 | 7.14E-108 |
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.
