Gene loci information

Transcript annotation

  • This transcript has been annotated as Glycerol-3-phosphate dehydrogenase [NAD(+)], cytoplasmic.

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_4 g15558 g15558.t17 isoform g15558.t17 5858625 5863844
chr_4 g15558 g15558.t17 exon g15558.t17.exon1 5858625 5859076
chr_4 g15558 g15558.t17 cds g15558.t17.CDS1 5858627 5859076
chr_4 g15558 g15558.t17 exon g15558.t17.exon2 5859222 5859373
chr_4 g15558 g15558.t17 cds g15558.t17.CDS2 5859222 5859373
chr_4 g15558 g15558.t17 exon g15558.t17.exon3 5863829 5863844
chr_4 g15558 g15558.t17 cds g15558.t17.CDS3 5863829 5863844
chr_4 g15558 g15558.t17 TTS g15558.t17 5864053 5864053
chr_4 g15558 g15558.t17 TSS g15558.t17 NA NA

Sequences

>g15558.t17 Gene=g15558 Length=620
TTATGGGTGCAAATCTCGCCAATGAAGTCGCTGAAGAGAAATTCTGTGAAACCACAATAG
GTGTCAAGGACAAGAAAATGGCACCAATTCTTCGTGATCTTTTCCAAACACCGAATTTCC
GTGTTGTAGTCAGTGACGATGTCGATGCAGTTGAAATTTGTGGTGCACTGAAAAACATTG
TCGCCTGTGGCGCTGGATTCACTGATGGCCTTGGCCTTGGTGACAATACTAAAGCAGCTG
TCATTCGTTTGGGTCTTATGGAAATGATCAAGTTTGTTGATGTTTTCTATCCAGGTAGCA
AACTTTCAACATTCTTTGAATCATGCGGTGTTGCTGATTTAATCACAACATGCTATGGTG
GTCGCAATCGTAAATGCAGTGAGGCCTTTGTTAAGACTGGCAAAAGCATTGTTGAATTAG
AAAAAGAAATGTTAAATGGTCAGAAATTACAGGGTCCAATTACAGCAGCTGAAGTCAACC
ATATGTTGAAAACTAGAAATATGGAAGACAAATTCCCACTTTTCACAGCTATTCATAAAA
TTTGCGTTGGAGAAATTAAACCAGCTCAAATGATTGACTGCATTAGAAACCATCCAGAAC
ACATGCAAACATTCAATTAA

>g15558.t17 Gene=g15558 Length=205
MGANLANEVAEEKFCETTIGVKDKKMAPILRDLFQTPNFRVVVSDDVDAVEICGALKNIV
ACGAGFTDGLGLGDNTKAAVIRLGLMEMIKFVDVFYPGSKLSTFFESCGVADLITTCYGG
RNRKCSEAFVKTGKSIVELEKEMLNGQKLQGPITAAEVNHMLKTRNMEDKFPLFTAIHKI
CVGEIKPAQMIDCIRNHPEHMQTFN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g15558.t17 Gene3D G3DSA:3.40.50.720 - 1 50 1.1E-15
11 g15558.t17 Gene3D G3DSA:1.10.1040.10 - 51 201 9.0E-70
2 g15558.t17 PANTHER PTHR11728:SF37 GLYCEROL-3-PHOSPHATE DEHYDROGENASE [NAD(+)] 1 200 6.7E-92
3 g15558.t17 PANTHER PTHR11728 GLYCEROL-3-PHOSPHATE DEHYDROGENASE 1 200 6.7E-92
5 g15558.t17 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 39 63 2.1E-39
6 g15558.t17 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 64 88 2.1E-39
4 g15558.t17 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 106 123 2.1E-39
1 g15558.t17 Pfam PF07479 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus 46 191 5.5E-47
9 g15558.t17 ProSitePatterns PS00957 NAD-dependent glycerol-3-phosphate dehydrogenase signature. 54 75 -
7 g15558.t17 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 2 46 2.56E-5
8 g15558.t17 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 45 200 4.08E-48
12 g15558.t17 TIGRFAM TIGR03376 glycerol3P_DH: glycerol-3-phosphate dehydrogenase (NAD(+)) 1 193 1.0E-85

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:0051287 NAD binding MF
GO:0055114 NA NA
GO:0042803 protein homodimerization activity MF
GO:0004367 glycerol-3-phosphate dehydrogenase [NAD+] activity MF
GO:0006072 glycerol-3-phosphate metabolic process BP
GO:0009331 glycerol-3-phosphate dehydrogenase complex CC
GO:0005975 carbohydrate metabolic process BP
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