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.t7 TSS g15558.t7 5854417 5854417
chr_4 g15558 g15558.t7 isoform g15558.t7 5854509 5859370
chr_4 g15558 g15558.t7 exon g15558.t7.exon1 5854509 5854549
chr_4 g15558 g15558.t7 cds g15558.t7.CDS1 5854509 5854549
chr_4 g15558 g15558.t7 exon g15558.t7.exon2 5854780 5854838
chr_4 g15558 g15558.t7 cds g15558.t7.CDS2 5854780 5854838
chr_4 g15558 g15558.t7 exon g15558.t7.exon3 5855538 5855656
chr_4 g15558 g15558.t7 cds g15558.t7.CDS3 5855538 5855656
chr_4 g15558 g15558.t7 exon g15558.t7.exon4 5858114 5858210
chr_4 g15558 g15558.t7 cds g15558.t7.CDS4 5858114 5858210
chr_4 g15558 g15558.t7 exon g15558.t7.exon5 5858446 5858555
chr_4 g15558 g15558.t7 cds g15558.t7.CDS5 5858446 5858555
chr_4 g15558 g15558.t7 exon g15558.t7.exon6 5858609 5859076
chr_4 g15558 g15558.t7 cds g15558.t7.CDS6 5858609 5859076
chr_4 g15558 g15558.t7 exon g15558.t7.exon7 5859222 5859370
chr_4 g15558 g15558.t7 cds g15558.t7.CDS7 5859222 5859368
chr_4 g15558 g15558.t7 TTS g15558.t7 5860235 5860235

Sequences

>g15558.t7 Gene=g15558 Length=1043
ATGTCAAAAACATCAGTTTGCATCGTAGGATCAGGAAATTGGGGCTCTGCAATTGCCAAG
ATTGTCGGCGTCAATGCAAAGAATCTTCCGCAGTATGAAGATCGTGTCACAATGTACGTT
TTTGAGGAGATGATAGAAGGCAAGAAATTGACTGAAATTATCAACACAACTCATGAAAAC
GTAAAATACTTGCCGGGACACAAATTGCCTGAAAATATCGTTGCCGTTCCTGATGTTGTT
GAAGCTGCTAAAGATGCTGATATTTTGATTTTTGTTATTCCTCATCAATTTATCAAGGGC
TTGGGTGCTCAACTTGTTGGTAAAATTAGGCCAACAGCAATTGGACTTTCACTTATCAAA
GGCTTTGACATCGCTGAAGGTGGCGGAATTGAATTAATTTCAAAAATCATTACAAAACAT
CTTCAGATTCCATGTGCAGTACTTATGGGTGCAAATCTCGCCAATGAAGTCGCTGAAGAG
AAATTCTGTGAAACCACAATAGGTGTCAAGGACAAGAAAATGGCACCAATTCTTCGTGAT
CTTTTCCAAACACCGAATTTCCGTGTTGTAGTCAGTGACGATGTCGATGCAGTTGAAATT
TGTGGTGCACTGAAAAACATTGTCGCCTGTGGCGCTGGATTCACTGATGGCCTTGGCCTT
GGTGACAATACTAAAGCAGCTGTCATTCGTTTGGGTCTTATGGAAATGATCAAGTTTGTT
GATGTTTTCTATCCAGGTAGCAAACTTTCAACATTCTTTGAATCATGCGGTGTTGCTGAT
TTAATCACAACATGCTATGGTGGTCGCAATCGTAAATGCAGTGAGGCCTTTGTTAAGACT
GGCAAAAGCATTGTTGAATTAGAAAAAGAAATGTTAAATGGTCAGAAATTACAGGGTCCA
ATTACAGCAGCTGAAGTCAACCATATGTTGAAAACTAGAAATATGGAAGACAAATTCCCA
CTTTTCACAGCTATTCATAAAATTTGCGTTGGAGAAATTAAACCAGCTCAAATGATTGAC
TGCATTAGAAACCATCCAGAACA

>g15558.t7 Gene=g15558 Length=347
MSKTSVCIVGSGNWGSAIAKIVGVNAKNLPQYEDRVTMYVFEEMIEGKKLTEIINTTHEN
VKYLPGHKLPENIVAVPDVVEAAKDADILIFVIPHQFIKGLGAQLVGKIRPTAIGLSLIK
GFDIAEGGGIELISKIITKHLQIPCAVLMGANLANEVAEEKFCETTIGVKDKKMAPILRD
LFQTPNFRVVVSDDVDAVEICGALKNIVACGAGFTDGLGLGDNTKAAVIRLGLMEMIKFV
DVFYPGSKLSTFFESCGVADLITTCYGGRNRKCSEAFVKTGKSIVELEKEMLNGQKLQGP
ITAAEVNHMLKTRNMEDKFPLFTAIHKICVGEIKPAQMIDCIRNHPE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g15558.t7 Gene3D G3DSA:3.40.50.720 - 1 192 2.2E-78
14 g15558.t7 Gene3D G3DSA:1.10.1040.10 - 194 347 4.6E-68
3 g15558.t7 PANTHER PTHR11728:SF8 GLYCEROL-3-PHOSPHATE DEHYDROGENASE [NAD(+)]-RELATED 2 346 1.2E-160
4 g15558.t7 PANTHER PTHR11728 GLYCEROL-3-PHOSPHATE DEHYDROGENASE 2 346 1.2E-160
15 g15558.t7 PIRSF PIRSF000114 Glycerol-3-P_dh 1 347 4.9E-94
7 g15558.t7 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 8 25 3.5E-81
10 g15558.t7 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 70 97 3.5E-81
5 g15558.t7 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 147 167 3.5E-81
8 g15558.t7 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 187 211 3.5E-81
6 g15558.t7 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 212 236 3.5E-81
9 g15558.t7 PRINTS PR00077 NAD-dependent glycerol-3-phosphate dehydrogenase signature 254 271 3.5E-81
1 g15558.t7 Pfam PF01210 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus 5 174 3.9E-51
2 g15558.t7 Pfam PF07479 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus 194 339 2.3E-46
16 g15558.t7 ProSitePatterns PS00957 NAD-dependent glycerol-3-phosphate dehydrogenase signature. 202 223 -
11 g15558.t7 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 194 3.54E-40
12 g15558.t7 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 193 346 6.29E-47
17 g15558.t7 TIGRFAM TIGR03376 glycerol3P_DH: glycerol-3-phosphate dehydrogenase (NAD(+)) 6 341 7.2E-155

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

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