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.t1 TTS g3365.t1 24877436 24877436
chr_3 g3365 g3365.t1 isoform g3365.t1 24877527 24879862
chr_3 g3365 g3365.t1 exon g3365.t1.exon1 24877527 24878453
chr_3 g3365 g3365.t1 cds g3365.t1.CDS1 24877527 24878453
chr_3 g3365 g3365.t1 exon g3365.t1.exon2 24878524 24878810
chr_3 g3365 g3365.t1 cds g3365.t1.CDS2 24878524 24878810
chr_3 g3365 g3365.t1 exon g3365.t1.exon3 24879231 24879345
chr_3 g3365 g3365.t1 cds g3365.t1.CDS3 24879231 24879345
chr_3 g3365 g3365.t1 exon g3365.t1.exon4 24879649 24879757
chr_3 g3365 g3365.t1 cds g3365.t1.CDS4 24879649 24879757
chr_3 g3365 g3365.t1 exon g3365.t1.exon5 24879855 24879862
chr_3 g3365 g3365.t1 cds g3365.t1.CDS5 24879855 24879862
chr_3 g3365 g3365.t1 TSS g3365.t1 24879992 24879992

Sequences

>g3365.t1 Gene=g3365 Length=1446
ATGGCACAAAAAGCTGATATCGCATTAATTGGGCTCGCAGTGATGGGTCAAAATTTGATA
CTTAATATGGATTCAAAAGGTTTCGTTGTGTGTGCATTTAATCGTACTGTCGATAAGGTC
AAGCAATTTTTGGAAAATGAGGCAAAGGGAACAAAAATAATCGGTGCAACATCAATGGAA
GATATGGTTAGCAAATTGAAGACTCCTCGACGTGTTATGCTTCTGGTCAAAGCTGGGAGT
GCTGTTGATGATTTTATCAAACAATTAACTCCATTACTTTCACCTGGTGATATCATCATT
GATGGTGGAAATTCTGAATATCAAGATACTGCAAGACGTGTTGAAGAATGCAAAAAGAAT
AAATTATTGTTTGTTGGTTCAGGTGTAAGCGGAGGTGAAGAAGGTGCACGTTATGGACCA
TCATTAATGCCTGGCGGTAATCCTGAAGCTTGGCCACATATTAAAGACATTTTCCAATCA
ATCTGTGCACGTGCTGACAATGAACCTTGTTGTGAGTGGGTCGGTGAAGGCGGTAGCGGT
CATTTTGTTAAAATGGTACATAATGGAATTGAGTATGGTGATATGCAACTAATTTGTGAA
GCATATGATTTAATGAAAGCAATGGGTATGAGTCAAAAAGAAATGGCTGATGCATTTACT
GAATGGAACAAAGGCGAACTTGATTCTTTCCTCATTGAAATTACCAGTAGTATTCTCAAT
TATAAAGATAAGGAAGGATATTTGCTTGAACGTATTCGTGACACTGCTGGTCAAAAAGGT
ACTGGGAAATGGACTGCAATTGCTGCTCTTCAATACGGTGTACCCGTTACTCTAATTGGT
GAAGCTGTCTTCTCTCGTTGCTTATCTGCTCTTAAAAGTGAACGAGTTGCTGCAAGCAAA
GTACTGAATGGTCCAGACACAAAACCAACTGTCGCTAACAAGGCTGAATTCTTGAATCAC
ATTAAGAATGCTCTTTATTGTGCAAAAATTGTTTCATATGCTCAAGGTTTTATGTTGATG
CGTGAGGCTGCAAAGGAAAATGGCTGGCACTTAAATTATGGCGGTATTGCTTTGATGTGG
AGAGGTGGTTGCATCATAAGAAGTGTATTCTTAGGAAACATTAAAGAAGCATTCACTCGT
AATCCACAATTATCAAATTTATTACTTGATGACTTTTTCAAGAATGCAATTACTAAAAAT
CAAAATTCCTGGCGACAAGTTGTATCAAATGCGACACTTTGGGGAATTCCAGTTCCAGCA
CTTTCAGCTGCTCTTGCCTTCTTTGACGGCTATCGTGCTGATCGTCTTCCGGCTAATCTA
TTGCAAGCACAAAGAGACTTCTTTGGTGCTCATACATATGAATTGTTAGGTCAAGAGGGC
AAATTTGTTCATACAAATTGGACTGGAACTGGTGGAAATGTTAGTGCATCATCATATAAT
GCATAA

>g3365.t1 Gene=g3365 Length=481
MAQKADIALIGLAVMGQNLILNMDSKGFVVCAFNRTVDKVKQFLENEAKGTKIIGATSME
DMVSKLKTPRRVMLLVKAGSAVDDFIKQLTPLLSPGDIIIDGGNSEYQDTARRVEECKKN
KLLFVGSGVSGGEEGARYGPSLMPGGNPEAWPHIKDIFQSICARADNEPCCEWVGEGGSG
HFVKMVHNGIEYGDMQLICEAYDLMKAMGMSQKEMADAFTEWNKGELDSFLIEITSSILN
YKDKEGYLLERIRDTAGQKGTGKWTAIAALQYGVPVTLIGEAVFSRCLSALKSERVAASK
VLNGPDTKPTVANKAEFLNHIKNALYCAKIVSYAQGFMLMREAAKENGWHLNYGGIALMW
RGGCIIRSVFLGNIKEAFTRNPQLSNLLLDDFFKNAITKNQNSWRQVVSNATLWGIPVPA
LSAALAFFDGYRADRLPANLLQAQRDFFGAHTYELLGQEGKFVHTNWTGTGGNVSASSYN
A

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3365.t1 Gene3D G3DSA:3.40.50.720 - 1 181 7.8E-54
15 g3365.t1 Gene3D G3DSA:1.10.1040.10 - 182 434 9.0E-110
14 g3365.t1 Gene3D G3DSA:1.20.5.320 - 435 481 4.6E-25
3 g3365.t1 PANTHER PTHR11811:SF50 6-PHOSPHOGLUCONATE DEHYDROGENASE, DECARBOXYLATING 4 480 1.7E-236
4 g3365.t1 PANTHER PTHR11811 6-PHOSPHOGLUCONATE DEHYDROGENASE 4 480 1.7E-236
16 g3365.t1 PIRSF PIRSF000109 6PGD 1 476 2.5E-240
7 g3365.t1 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 5 28 9.6E-82
9 g3365.t1 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 68 97 9.6E-82
6 g3365.t1 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 121 146 9.6E-82
10 g3365.t1 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 169 197 9.6E-82
5 g3365.t1 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 248 275 9.6E-82
8 g3365.t1 PRINTS PR00076 6-phosphogluconate dehydrogenase signature 356 378 9.6E-82
2 g3365.t1 Pfam PF03446 NAD binding domain of 6-phosphogluconate dehydrogenase 6 174 5.6E-48
1 g3365.t1 Pfam PF00393 6-phosphogluconate dehydrogenase, C-terminal domain 180 467 3.0E-129
17 g3365.t1 ProSitePatterns PS00461 6-phosphogluconate dehydrogenase signature. 252 264 -
18 g3365.t1 SMART SM01350 6PGD_2 180 468 1.3E-214
11 g3365.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 5 177 2.5E-51
12 g3365.t1 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 178 471 5.85E-129
19 g3365.t1 TIGRFAM TIGR00873 gnd: 6-phosphogluconate dehydrogenase (decarboxylating) 6 468 7.5E-220

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