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.t12 isoform g15558.t12 5855538 5862867
chr_4 g15558 g15558.t12 exon g15558.t12.exon1 5855538 5855656
chr_4 g15558 g15558.t12 cds g15558.t12.CDS1 5855549 5855656
chr_4 g15558 g15558.t12 exon g15558.t12.exon2 5858120 5858210
chr_4 g15558 g15558.t12 cds g15558.t12.CDS2 5858120 5858210
chr_4 g15558 g15558.t12 exon g15558.t12.exon3 5858446 5858555
chr_4 g15558 g15558.t12 cds g15558.t12.CDS3 5858446 5858555
chr_4 g15558 g15558.t12 exon g15558.t12.exon4 5858609 5859076
chr_4 g15558 g15558.t12 cds g15558.t12.CDS4 5858609 5859076
chr_4 g15558 g15558.t12 exon g15558.t12.exon5 5859222 5859373
chr_4 g15558 g15558.t12 cds g15558.t12.CDS5 5859222 5859373
chr_4 g15558 g15558.t12 exon g15558.t12.exon6 5862432 5862867
chr_4 g15558 g15558.t12 cds g15558.t12.CDS6 5862432 5862462
chr_4 g15558 g15558.t12 TTS g15558.t12 5863215 5863215
chr_4 g15558 g15558.t12 TSS g15558.t12 NA NA

Sequences

>g15558.t12 Gene=g15558 Length=1376
ATCGTGTCACAATGTACGTTTTTGAGGAGATGATAGAAGGCAAGAAATTGACTGAAATTA
TCAACACAACTCATGAAAACGTAAAATACTTGCCGGGACACAAATTGCCTGAAAATATCG
TTCCTGATGTTGTTGAAGCTGCTAAAGATGCTGATATTTTGATTTTTGTTATTCCTCATC
AATTTATCAAGGGCTTGGGTGCTCAACTTGTTGGTAAAATTAGGCCAACAGCAATTGGAC
TTTCACTTATCAAAGGCTTTGACATCGCTGAAGGTGGCGGAATTGAATTAATTTCAAAAA
TCATTACAAAACATCTTCAGATTCCATGTGCAGTACTTATGGGTGCAAATCTCGCCAATG
AAGTCGCTGAAGAGAAATTCTGTGAAACCACAATAGGTGTCAAGGACAAGAAAATGGCAC
CAATTCTTCGTGATCTTTTCCAAACACCGAATTTCCGTGTTGTAGTCAGTGACGATGTCG
ATGCAGTTGAAATTTGTGGTGCACTGAAAAACATTGTCGCCTGTGGCGCTGGATTCACTG
ATGGCCTTGGCCTTGGTGACAATACTAAAGCAGCTGTCATTCGTTTGGGTCTTATGGAAA
TGATCAAGTTTGTTGATGTTTTCTATCCAGGTAGCAAACTTTCAACATTCTTTGAATCAT
GCGGTGTTGCTGATTTAATCACAACATGCTATGGTGGTCGCAATCGTAAATGCAGTGAGG
CCTTTGTTAAGACTGGCAAAAGCATTGTTGAATTAGAAAAAGAAATGTTAAATGGTCAGA
AATTACAGGGTCCAATTACAGCAGCTGAAGTCAACCATATGTTGAAAACTAGAAATATGG
AAGACAAATTCCCACTTTTCACAGCTATTCATAAAATTTGCGTTGGAGAAATTAAACCAG
CTCAAATGATTGACTGCATTAGAAACCATCCAGAACACATGGATTGTAGCGATGGCTTTG
CAAAGCTTTAAATTTGTTTCACAACATCCACCTATTCAAAACTGAAAAAAATCCAAATCA
AAAACATTCATCAAAATAATCAAGACATAAAAGATTGAAAAATCCAAAGTCCTTAAATTT
ATAGAATGAAAAAAAATTAATAATTTTTATAAATGTTTGCATTTATATTCATTATTCATA
AAAAGTGTCAACAAATAATTACGTTCTTTTTAATATTTTTTTTGATTTATTAATTTTAAC
AAAAAAAATGAACTTTTTATTCTGCGAAGTTTACAATAACTCATTTCAAGAAATTTCTTA
GGGGTTAAATGTAGTGCAAGGATTAATTAACTTCACTGAAATTTTTCAGGTTAATAATTG
TTGTAAACTTACCAGAGAATCATTTTTACTAGTCTATTATTGGAAAAATTCAGAAA

>g15558.t12 Gene=g15558 Length=319
MYVFEEMIEGKKLTEIINTTHENVKYLPGHKLPENIVPDVVEAAKDADILIFVIPHQFIK
GLGAQLVGKIRPTAIGLSLIKGFDIAEGGGIELISKIITKHLQIPCAVLMGANLANEVAE
EKFCETTIGVKDKKMAPILRDLFQTPNFRVVVSDDVDAVEICGALKNIVACGAGFTDGLG
LGDNTKAAVIRLGLMEMIKFVDVFYPGSKLSTFFESCGVADLITTCYGGRNRKCSEAFVK
TGKSIVELEKEMLNGQKLQGPITAAEVNHMLKTRNMEDKFPLFTAIHKICVGEIKPAQMI
DCIRNHPEHMDCSDGFAKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g15558.t12 Gene3D G3DSA:3.40.50.720 - 1 153 7.7E-59
13 g15558.t12 Gene3D G3DSA:1.10.1040.10 - 155 310 3.2E-69
3 g15558.t12 PANTHER PTHR11728:SF8 GLYCEROL-3-PHOSPHATE DEHYDROGENASE [NAD(+)]-RELATED 1 310 2.3E-141
4 g15558.t12 PANTHER PTHR11728 GLYCEROL-3-PHOSPHATE DEHYDROGENASE 1 310 2.3E-141
14 g15558.t12 PIRSF PIRSF000114 Glycerol-3-P_dh 1 311 3.5E-80
6 g15558.t12 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 31 58 1.5E-66
8 g15558.t12 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 108 128 1.5E-66
9 g15558.t12 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 148 172 1.5E-66
5 g15558.t12 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 173 197 1.5E-66
7 g15558.t12 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 215 232 1.5E-66
1 g15558.t12 Pfam PF01210 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus 2 135 1.3E-36
2 g15558.t12 Pfam PF07479 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus 155 300 1.9E-46
15 g15558.t12 ProSitePatterns PS00957 NAD-dependent glycerol-3-phosphate dehydrogenase signature. 163 184 -
10 g15558.t12 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 12 155 4.15E-29
11 g15558.t12 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 154 310 1.31E-47
16 g15558.t12 TIGRFAM TIGR03376 glycerol3P_DH: glycerol-3-phosphate dehydrogenase (NAD(+)) 1 302 2.5E-135

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