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.t13 isoform g15558.t13 5855555 5862462
chr_4 g15558 g15558.t13 exon g15558.t13.exon1 5855555 5855656
chr_4 g15558 g15558.t13 cds g15558.t13.CDS1 5855567 5855656
chr_4 g15558 g15558.t13 exon g15558.t13.exon2 5858114 5858210
chr_4 g15558 g15558.t13 cds g15558.t13.CDS2 5858114 5858210
chr_4 g15558 g15558.t13 exon g15558.t13.exon3 5858446 5858555
chr_4 g15558 g15558.t13 cds g15558.t13.CDS3 5858446 5858555
chr_4 g15558 g15558.t13 exon g15558.t13.exon4 5858609 5859076
chr_4 g15558 g15558.t13 cds g15558.t13.CDS4 5858609 5859076
chr_4 g15558 g15558.t13 exon g15558.t13.exon5 5859222 5859373
chr_4 g15558 g15558.t13 cds g15558.t13.CDS5 5859222 5859373
chr_4 g15558 g15558.t13 exon g15558.t13.exon6 5862432 5862462
chr_4 g15558 g15558.t13 cds g15558.t13.CDS6 5862432 5862462
chr_4 g15558 g15558.t13 TTS g15558.t13 5862486 5862486
chr_4 g15558 g15558.t13 TSS g15558.t13 NA NA

Sequences

>g15558.t13 Gene=g15558 Length=960
GTTTTTGAGGAGATGATAGAAGGCAAGAAATTGACTGAAATTATCAACACAACTCATGAA
AACGTAAAATACTTGCCGGGACACAAATTGCCTGAAAATATCGTTGCCGTTCCTGATGTT
GTTGAAGCTGCTAAAGATGCTGATATTTTGATTTTTGTTATTCCTCATCAATTTATCAAG
GGCTTGGGTGCTCAACTTGTTGGTAAAATTAGGCCAACAGCAATTGGACTTTCACTTATC
AAAGGCTTTGACATCGCTGAAGGTGGCGGAATTGAATTAATTTCAAAAATCATTACAAAA
CATCTTCAGATTCCATGTGCAGTACTTATGGGTGCAAATCTCGCCAATGAAGTCGCTGAA
GAGAAATTCTGTGAAACCACAATAGGTGTCAAGGACAAGAAAATGGCACCAATTCTTCGT
GATCTTTTCCAAACACCGAATTTCCGTGTTGTAGTCAGTGACGATGTCGATGCAGTTGAA
ATTTGTGGTGCACTGAAAAACATTGTCGCCTGTGGCGCTGGATTCACTGATGGCCTTGGC
CTTGGTGACAATACTAAAGCAGCTGTCATTCGTTTGGGTCTTATGGAAATGATCAAGTTT
GTTGATGTTTTCTATCCAGGTAGCAAACTTTCAACATTCTTTGAATCATGCGGTGTTGCT
GATTTAATCACAACATGCTATGGTGGTCGCAATCGTAAATGCAGTGAGGCCTTTGTTAAG
ACTGGCAAAAGCATTGTTGAATTAGAAAAAGAAATGTTAAATGGTCAGAAATTACAGGGT
CCAATTACAGCAGCTGAAGTCAACCATATGTTGAAAACTAGAAATATGGAAGACAAATTC
CCACTTTTCACAGCTATTCATAAAATTTGCGTTGGAGAAATTAAACCAGCTCAAATGATT
GACTGCATTAGAAACCATCCAGAACACATGGATTGTAGCGATGGCTTTGCAAAGCTTTAA

>g15558.t13 Gene=g15558 Length=315
MIEGKKLTEIINTTHENVKYLPGHKLPENIVAVPDVVEAAKDADILIFVIPHQFIKGLGA
QLVGKIRPTAIGLSLIKGFDIAEGGGIELISKIITKHLQIPCAVLMGANLANEVAEEKFC
ETTIGVKDKKMAPILRDLFQTPNFRVVVSDDVDAVEICGALKNIVACGAGFTDGLGLGDN
TKAAVIRLGLMEMIKFVDVFYPGSKLSTFFESCGVADLITTCYGGRNRKCSEAFVKTGKS
IVELEKEMLNGQKLQGPITAAEVNHMLKTRNMEDKFPLFTAIHKICVGEIKPAQMIDCIR
NHPEHMDCSDGFAKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g15558.t13 Gene3D G3DSA:3.40.50.720 - 1 149 9.4E-59
13 g15558.t13 Gene3D G3DSA:1.10.1040.10 - 151 306 3.1E-69
3 g15558.t13 PANTHER PTHR11728:SF8 GLYCEROL-3-PHOSPHATE DEHYDROGENASE [NAD(+)]-RELATED 1 306 1.0E-140
4 g15558.t13 PANTHER PTHR11728 GLYCEROL-3-PHOSPHATE DEHYDROGENASE 1 306 1.0E-140
14 g15558.t13 PIRSF PIRSF000114 Glycerol-3-P_dh 1 307 6.2E-82
9 g15558.t13 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 27 54 6.4E-70
6 g15558.t13 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 104 124 6.4E-70
8 g15558.t13 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 144 168 6.4E-70
5 g15558.t13 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 169 193 6.4E-70
7 g15558.t13 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 211 228 6.4E-70
1 g15558.t13 Pfam PF01210 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus 5 131 2.4E-39
2 g15558.t13 Pfam PF07479 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus 151 296 1.8E-46
15 g15558.t13 ProSitePatterns PS00957 NAD-dependent glycerol-3-phosphate dehydrogenase signature. 159 180 -
10 g15558.t13 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 6 151 4.26E-32
11 g15558.t13 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 150 306 1.28E-47
16 g15558.t13 TIGRFAM TIGR03376 glycerol3P_DH: glycerol-3-phosphate dehydrogenase (NAD(+)) 2 298 1.1E-134

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:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor MF
GO:0046168 glycerol-3-phosphate catabolic process BP
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