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.t12 TTS g3365.t12 24877436 24877436
chr_3 g3365 g3365.t12 isoform g3365.t12 24877527 24879862
chr_3 g3365 g3365.t12 exon g3365.t12.exon1 24877527 24877547
chr_3 g3365 g3365.t12 cds g3365.t12.CDS1 24877527 24877547
chr_3 g3365 g3365.t12 exon g3365.t12.exon2 24877626 24878453
chr_3 g3365 g3365.t12 cds g3365.t12.CDS2 24877626 24878453
chr_3 g3365 g3365.t12 exon g3365.t12.exon3 24878524 24878810
chr_3 g3365 g3365.t12 cds g3365.t12.CDS3 24878524 24878810
chr_3 g3365 g3365.t12 exon g3365.t12.exon4 24879231 24879345
chr_3 g3365 g3365.t12 cds g3365.t12.CDS4 24879231 24879345
chr_3 g3365 g3365.t12 exon g3365.t12.exon5 24879649 24879757
chr_3 g3365 g3365.t12 cds g3365.t12.CDS5 24879649 24879757
chr_3 g3365 g3365.t12 exon g3365.t12.exon6 24879855 24879862
chr_3 g3365 g3365.t12 cds g3365.t12.CDS6 24879855 24879862
chr_3 g3365 g3365.t12 TSS g3365.t12 24879992 24879992

Sequences

>g3365.t12 Gene=g3365 Length=1368
ATGGCACAAAAAGCTGATATCGCATTAATTGGGCTCGCAGTGATGGGTCAAAATTTGATA
CTTAATATGGATTCAAAAGGTTTCGTTGTGTGTGCATTTAATCGTACTGTCGATAAGGTC
AAGCAATTTTTGGAAAATGAGGCAAAGGGAACAAAAATAATCGGTGCAACATCAATGGAA
GATATGGTTAGCAAATTGAAGACTCCTCGACGTGTTATGCTTCTGGTCAAAGCTGGGAGT
GCTGTTGATGATTTTATCAAACAATTAACTCCATTACTTTCACCTGGTGATATCATCATT
GATGGTGGAAATTCTGAATATCAAGATACTGCAAGACGTGTTGAAGAATGCAAAAAGAAT
AAATTATTGTTTGTTGGTTCAGGTGTAAGCGGAGGTGAAGAAGGTGCACGTTATGGACCA
TCATTAATGCCTGGCGGTAATCCTGAAGCTTGGCCACATATTAAAGACATTTTCCAATCA
ATCTGTGCACGTGCTGACAATGAACCTTGTTGTGAGTGGGTCGGTGAAGGCGGTAGCGGT
CATTTTGTTAAAATGGTACATAATGGAATTGAGTATGGTGATATGCAACTAATTTGTGAA
GCATATGATTTAATGAAAGCAATGGGTATGAGTCAAAAAGAAATGGCTGATGCATTTACT
GAATGGAACAAAGGCGAACTTGATTCTTTCCTCATTGAAATTACCAGTAGTATTCTCAAT
TATAAAGATAAGGAAGGATATTTGCTTGAACGTATTCGTGACACTGCTGGTCAAAAAGGT
ACTGGGAAATGGACTGCAATTGCTGCTCTTCAATACGGTGTACCCGTTACTCTAATTGGT
GAAGCTGTCTTCTCTCGTTGCTTATCTGCTCTTAAAAGTGAACGAGTTGCTGCAAGCAAA
GTACTGAATGGTCCAGACACAAAACCAACTGTCGCTAACAAGGCTGAATTCTTGAATCAC
ATTAAGAATGCTCTTTATTGTGCAAAAATTGTTTCATATGCTCAAGGTTTTATGTTGATG
CGTGAGGCTGCAAAGGAAAATGGCTGGCACTTAAATTATGGCGGTATTGCTTTGATGTGG
AGAGGTGGTTGCATCATAAGAAGTGTATTCTTAGGAAACATTAAAGAAGCATTCACTCGT
AATCCACAATTATCAAATTTATTACTTGATGACTTTTTCAAGAATGCAATTACTAAAAAT
CAAAATTCCTGGCGACAAGTTGTATCAAATGCGACACTTTGGGGAATTCCAGTTCCAGCA
CTTTCAGCTGCTCTTGCCTTCTTTGACGGCTATCGTGCTGATCGTCTTCCGGCTAATCTA
TTGCAAGCACAAAGAGACTTCTTTGGTGCATCATCATATAATGCATAA

>g3365.t12 Gene=g3365 Length=455
MAQKADIALIGLAVMGQNLILNMDSKGFVVCAFNRTVDKVKQFLENEAKGTKIIGATSME
DMVSKLKTPRRVMLLVKAGSAVDDFIKQLTPLLSPGDIIIDGGNSEYQDTARRVEECKKN
KLLFVGSGVSGGEEGARYGPSLMPGGNPEAWPHIKDIFQSICARADNEPCCEWVGEGGSG
HFVKMVHNGIEYGDMQLICEAYDLMKAMGMSQKEMADAFTEWNKGELDSFLIEITSSILN
YKDKEGYLLERIRDTAGQKGTGKWTAIAALQYGVPVTLIGEAVFSRCLSALKSERVAASK
VLNGPDTKPTVANKAEFLNHIKNALYCAKIVSYAQGFMLMREAAKENGWHLNYGGIALMW
RGGCIIRSVFLGNIKEAFTRNPQLSNLLLDDFFKNAITKNQNSWRQVVSNATLWGIPVPA
LSAALAFFDGYRADRLPANLLQAQRDFFGASSYNA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3365.t12 Gene3D G3DSA:3.40.50.720 - 1 181 6.9E-54
15 g3365.t12 Gene3D G3DSA:1.10.1040.10 - 182 434 7.8E-110
14 g3365.t12 Gene3D G3DSA:1.20.5.320 - 436 455 6.5E-7
3 g3365.t12 PANTHER PTHR11811:SF50 6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING 4 454 1.5E-223
4 g3365.t12 PANTHER PTHR11811 6-PHOSPHOGLUCONATE DEHYDROGENASE 4 454 1.5E-223
16 g3365.t12 PIRSF PIRSF000109 6PGD 1 455 2.9E-230
7 g3365.t12 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 5 28 8.3E-82
9 g3365.t12 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 68 97 8.3E-82
6 g3365.t12 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 121 146 8.3E-82
10 g3365.t12 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 169 197 8.3E-82
5 g3365.t12 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 248 275 8.3E-82
8 g3365.t12 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 356 378 8.3E-82
2 g3365.t12 Pfam PF03446 NAD binding domain of 6-phosphogluconate dehydrogenase 6 174 5.0E-48
1 g3365.t12 Pfam PF00393 6-phosphogluconate dehydrogenase, C-terminal domain 180 454 4.2E-123
17 g3365.t12 ProSitePatterns PS00461 6-phosphogluconate dehydrogenase signature. 252 264 -
18 g3365.t12 SMART SM01350 6PGD_2 180 451 1.4E-193
11 g3365.t12 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 5 177 2.23E-51
12 g3365.t12 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 178 454 1.29E-121
19 g3365.t12 TIGRFAM TIGR00873 gnd: 6-phosphogluconate dehydrogenase (decarboxylating) 6 454 5.5E-214

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:0050661 NADP binding MF
GO:0006098 pentose-phosphate shunt BP
GO:0004616 phosphogluconate dehydrogenase (decarboxylating) activity MF
GO:0055114 NA NA
GO:0016491 oxidoreductase activity MF

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.

Raw TPM values