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.t5 TTS g3365.t5 24877436 24877436
chr_3 g3365 g3365.t5 isoform g3365.t5 24877527 24879862
chr_3 g3365 g3365.t5 exon g3365.t5.exon1 24877527 24878453
chr_3 g3365 g3365.t5 cds g3365.t5.CDS1 24877527 24878453
chr_3 g3365 g3365.t5 exon g3365.t5.exon2 24878524 24878810
chr_3 g3365 g3365.t5 cds g3365.t5.CDS2 24878524 24878810
chr_3 g3365 g3365.t5 exon g3365.t5.exon3 24879231 24879345
chr_3 g3365 g3365.t5 cds g3365.t5.CDS3 24879231 24879345
chr_3 g3365 g3365.t5 exon g3365.t5.exon4 24879649 24879862
chr_3 g3365 g3365.t5 cds g3365.t5.CDS4 24879649 24879723
chr_3 g3365 g3365.t5 TSS g3365.t5 24879992 24879992

Sequences

>g3365.t5 Gene=g3365 Length=1543
ATGGCACAGTAAGTTCAATATTTATTCTTTTTACATGTGAAAATGTGATAATTTGCAAGA
GAAATTTGTGATAAATGATAAATGTTTTGCTTTCTTACAATGTAGAAAAGCTGATATCGC
ATTAATTGGGCTCGCAGTGATGGGTCAAAATTTGATACTTAATATGGATTCAAAAGGTTT
CGTTGTGTGTGCATTTAATCGTACTGTCGATAAGGTCAAGCAATTTTTGGAAAATGAGGC
AAAGGGAACAAAAATAATCGGTGCAACATCAATGGAAGATATGGTTAGCAAATTGAAGAC
TCCTCGACGTGTTATGCTTCTGGTCAAAGCTGGGAGTGCTGTTGATGATTTTATCAAACA
ATTAACTCCATTACTTTCACCTGGTGATATCATCATTGATGGTGGAAATTCTGAATATCA
AGATACTGCAAGACGTGTTGAAGAATGCAAAAAGAATAAATTATTGTTTGTTGGTTCAGG
TGTAAGCGGAGGTGAAGAAGGTGCACGTTATGGACCATCATTAATGCCTGGCGGTAATCC
TGAAGCTTGGCCACATATTAAAGACATTTTCCAATCAATCTGTGCACGTGCTGACAATGA
ACCTTGTTGTGAGTGGGTCGGTGAAGGCGGTAGCGGTCATTTTGTTAAAATGGTACATAA
TGGAATTGAGTATGGTGATATGCAACTAATTTGTGAAGCATATGATTTAATGAAAGCAAT
GGGTATGAGTCAAAAAGAAATGGCTGATGCATTTACTGAATGGAACAAAGGCGAACTTGA
TTCTTTCCTCATTGAAATTACCAGTAGTATTCTCAATTATAAAGATAAGGAAGGATATTT
GCTTGAACGTATTCGTGACACTGCTGGTCAAAAAGGTACTGGGAAATGGACTGCAATTGC
TGCTCTTCAATACGGTGTACCCGTTACTCTAATTGGTGAAGCTGTCTTCTCTCGTTGCTT
ATCTGCTCTTAAAAGTGAACGAGTTGCTGCAAGCAAAGTACTGAATGGTCCAGACACAAA
ACCAACTGTCGCTAACAAGGCTGAATTCTTGAATCACATTAAGAATGCTCTTTATTGTGC
AAAAATTGTTTCATATGCTCAAGGTTTTATGTTGATGCGTGAGGCTGCAAAGGAAAATGG
CTGGCACTTAAATTATGGCGGTATTGCTTTGATGTGGAGAGGTGGTTGCATCATAAGAAG
TGTATTCTTAGGAAACATTAAAGAAGCATTCACTCGTAATCCACAATTATCAAATTTATT
ACTTGATGACTTTTTCAAGAATGCAATTACTAAAAATCAAAATTCCTGGCGACAAGTTGT
ATCAAATGCGACACTTTGGGGAATTCCAGTTCCAGCACTTTCAGCTGCTCTTGCCTTCTT
TGACGGCTATCGTGCTGATCGTCTTCCGGCTAATCTATTGCAAGCACAAAGAGACTTCTT
TGGTGCTCATACATATGAATTGTTAGGTCAAGAGGGCAAATTTGTTCATACAAATTGGAC
TGGAACTGGTGGAAATGTTAGTGCATCATCATATAATGCATAA

>g3365.t5 Gene=g3365 Length=467
MGQNLILNMDSKGFVVCAFNRTVDKVKQFLENEAKGTKIIGATSMEDMVSKLKTPRRVML
LVKAGSAVDDFIKQLTPLLSPGDIIIDGGNSEYQDTARRVEECKKNKLLFVGSGVSGGEE
GARYGPSLMPGGNPEAWPHIKDIFQSICARADNEPCCEWVGEGGSGHFVKMVHNGIEYGD
MQLICEAYDLMKAMGMSQKEMADAFTEWNKGELDSFLIEITSSILNYKDKEGYLLERIRD
TAGQKGTGKWTAIAALQYGVPVTLIGEAVFSRCLSALKSERVAASKVLNGPDTKPTVANK
AEFLNHIKNALYCAKIVSYAQGFMLMREAAKENGWHLNYGGIALMWRGGCIIRSVFLGNI
KEAFTRNPQLSNLLLDDFFKNAITKNQNSWRQVVSNATLWGIPVPALSAALAFFDGYRAD
RLPANLLQAQRDFFGAHTYELLGQEGKFVHTNWTGTGGNVSASSYNA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g3365.t5 Gene3D G3DSA:3.40.50.720 - 1 167 9.9E-49
14 g3365.t5 Gene3D G3DSA:1.10.1040.10 - 168 420 8.3E-110
13 g3365.t5 Gene3D G3DSA:1.20.5.320 - 421 467 4.4E-25
3 g3365.t5 PANTHER PTHR11811:SF50 6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING 1 466 1.7E-230
4 g3365.t5 PANTHER PTHR11811 6-PHOSPHOGLUCONATE DEHYDROGENASE 1 466 1.7E-230
15 g3365.t5 PIRSF PIRSF000109 6PGD 1 462 1.9E-233
6 g3365.t5 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 54 83 4.4E-68
5 g3365.t5 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 107 132 4.4E-68
7 g3365.t5 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 155 183 4.4E-68
9 g3365.t5 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 234 261 4.4E-68
8 g3365.t5 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 342 364 4.4E-68
2 g3365.t5 Pfam PF03446 NAD binding domain of 6-phosphogluconate dehydrogenase 1 160 1.4E-42
1 g3365.t5 Pfam PF00393 6-phosphogluconate dehydrogenase, C-terminal domain 166 453 2.7E-129
16 g3365.t5 ProSitePatterns PS00461 6-phosphogluconate dehydrogenase signature. 238 250 -
17 g3365.t5 SMART SM01350 6PGD_2 166 454 1.3E-214
10 g3365.t5 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 1 163 1.37E-45
11 g3365.t5 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 164 457 5.37E-129
18 g3365.t5 TIGRFAM TIGR00873 gnd: 6-phosphogluconate dehydrogenase (decarboxylating) 1 454 8.2E-215

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