Gene loci information

Transcript annotation

  • This transcript has been annotated as Glyceraldehyde-3-phosphate dehydrogenase.

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_2 g4309 g4309.t8 isoform g4309.t8 1118057 1119483
chr_2 g4309 g4309.t8 exon g4309.t8.exon1 1118057 1118223
chr_2 g4309 g4309.t8 TTS g4309.t8 1118060 1118060
chr_2 g4309 g4309.t8 cds g4309.t8.CDS1 1118212 1118223
chr_2 g4309 g4309.t8 exon g4309.t8.exon2 1118669 1119483
chr_2 g4309 g4309.t8 cds g4309.t8.CDS2 1118669 1119442
chr_2 g4309 g4309.t8 TSS g4309.t8 1120395 1120395

Sequences

>g4309.t8 Gene=g4309 Length=982
ACTTAATCGTATTCAGCAAAGCTAAAGCAAACTAATCAAAAATGTCAAAGATCGGTATCA
ATGGTTTTGGACGTATTGGACGTTTGGTCCTCCGTGCTGCTTTGGACAAGGGAGCTCAAG
TTGTTGCTGTTAACGATCCATTCATCAATGTTGACTATATGGTTTACATGTTCAAATATG
ACTCAACCCACGGTCGCTTCAAGGGAGAGGTCAAGGCTGAAGGCGGTTTCTTAGTCATCA
ATGGACAAAAGATTACAGTTTTCCAAGAACGTGATCCAAAGAATATTGCATGGGGAAAGG
CTGGCGCTGAATACATTGTTGAATCAACTGGTGTTTTCACTACTATTGAAAAGGCATCAG
CTCACTTTGAAGGCGGTGCAAAGAAAGTCATTATCTCAGCTCCATCAGCTGATGCACCAA
TGTTCGTTTGCGGTGTCAACTTGGATGCATACGATCCATCAATGAAGGTCGTCTCGAACG
CTTCATGCACAACCAACTGCTTGGCTCCATTAGCTAAAGTTGTCCACGATAACTTCGAAA
TCATTGAGGGATTGATGACCACTGTTCATGCAACCACAGCTACACAAAAGACCGTCGATG
GCCCATCAGGCAAATTGTGGCGTGATGGACGTGGTGCTGCTCAAAATATCATTCCAGCAG
CTACTGGAGCAGCTAAGGCTGTCGGAAAAGTTATTCCAGCTTTGAATGGAAAATTGACTG
GTATGGCTTTCCGTGTTCCAACTGCTGATGTTTCAGTCGTTGATTTGACTGTTCGCCTCG
CTAAGCCAGCTCCTTATGCCGAAATCAAGAAGAAGGTCAAAAAATAGGTTCCTTTACCCT
ATATCAGCAAAAATAATATTCAATATTATTATTCAAACAACAACACACTTAAATCTGATG
TCATCAATTTATCTAGATTGTAAGGCATAATAATTTTTAAGGAAATAAAATACATCGTTC
TGTGAAGCAGTTACAAAAGAAA

>g4309.t8 Gene=g4309 Length=261
MSKIGINGFGRIGRLVLRAALDKGAQVVAVNDPFINVDYMVYMFKYDSTHGRFKGEVKAE
GGFLVINGQKITVFQERDPKNIAWGKAGAEYIVESTGVFTTIEKASAHFEGGAKKVIISA
PSADAPMFVCGVNLDAYDPSMKVVSNASCTTNCLAPLAKVVHDNFEIIEGLMTTVHATTA
TQKTVDGPSGKLWRDGRGAAQNIIPAATGAAKAVGKVIPALNGKLTGMAFRVPTADVSVV
DLTVRLAKPAPYAEIKKKVKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g4309.t8 Gene3D G3DSA:3.40.50.720 - 3 147 1.6E-121
14 g4309.t8 Gene3D G3DSA:3.30.360.10 Dihydrodipicolinate Reductase; domain 2 148 261 1.6E-121
3 g4309.t8 PANTHER PTHR10836:SF103 GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE 2 3 261 1.8E-143
4 g4309.t8 PANTHER PTHR10836 GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE 3 261 1.8E-143
8 g4309.t8 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 108 121 5.6E-39
6 g4309.t8 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 143 161 5.6E-39
5 g4309.t8 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 170 186 5.6E-39
7 g4309.t8 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 227 244 5.6E-39
2 g4309.t8 Pfam PF00044 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain 3 101 1.6E-37
1 g4309.t8 Pfam PF02800 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain 154 261 2.0E-45
12 g4309.t8 ProSitePatterns PS00071 Glyceraldehyde 3-phosphate dehydrogenase active site. 147 154 -
11 g4309.t8 SMART SM00846 gp_dh_n_7 2 149 1.5E-96
9 g4309.t8 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 169 9.34E-77
10 g4309.t8 SUPERFAMILY SSF55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 148 261 9.04E-55

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:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor MF
GO:0051287 NAD binding MF
GO:0055114 NA NA

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. There were no conditions that were differentially expressed