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.t7 isoform g4309.t7 1118057 1119442
chr_2 g4309 g4309.t7 exon g4309.t7.exon1 1118057 1118784
chr_2 g4309 g4309.t7 TTS g4309.t7 1118060 1118060
chr_2 g4309 g4309.t7 cds g4309.t7.CDS1 1118779 1118784
chr_2 g4309 g4309.t7 exon g4309.t7.exon2 1118921 1119442
chr_2 g4309 g4309.t7 cds g4309.t7.CDS2 1118921 1119442
chr_2 g4309 g4309.t7 TSS g4309.t7 1120395 1120395

Sequences

>g4309.t7 Gene=g4309 Length=1250
ATGTCAAAGATCGGTATCAATGGTTTTGGACGTATTGGACGTTTGGTCCTCCGTGCTGCT
TTGGACAAGGGAGCTCAAGTTGTTGCTGTTAACGATCCATTCATCAATGTTGACTATATG
GTTTACATGTTCAAATATGACTCAACCCACGGTCGCTTCAAGGGAGAGGTCAAGGCTGAA
GGCGGTTTCTTAGTCATCAATGGACAAAAGATTACAGTTTTCCAAGAACGTGATCCAAAG
AATATTGCATGGGGAAAGGCTGGCGCTGAATACATTGTTGAATCAACTGGTGTTTTCACT
ACTATTGAAAAGGCATCAGCTCACTTTGAAGGCGGTGCAAAGAAAGTCATTATCTCAGCT
CCATCAGCTGATGCACCAATGTTCGTTTGCGGTGTCAACTTGGATGCATACGATCCATCA
ATGAAGGTCGTCTCGAACGCTTCATGCACAACCAACTGCTTGGCTCCATTAGCTAAAGTT
GTCCACGATAACTTCGAAATCATTGAGGGATTGATGACCACTCTTTGAATGGAAAATTGA
CTGGTATGGCTTTCCGTGTTCCAACTGCTGATGTTTCAGTCGTTGATTTGACTGTTCGCC
TCGCTAAGCCAGCTCCTTATGCCGAAATCAAGAAGAAGGTTAAGGAAGCCGCTGAAGGTC
CAATGAAGGGAATTTTGGATTACACTGAAGATGAAGTTGTCTCAACTGATTTCACCAGTG
ACACACACTCATCTGTCTTTGATGCCGCCGCTGGTATTCCATTGAATGACCACTTCGTTA
AGCTCATCTCATGGTACGATAACGAATACGGTTACTCCAACCGCGTTGTCGATCTCATCA
AGTACATGCAAAGCAAGGATTAAATCAATTGTTACTAAATGATTCCAGTCCTTCAATTTA
AAAAATGAGAAGCATCACAACATCTGCATGCAGATTCTTTTAAATAATTAAAAAGTGATT
GGTGACACACACGTATGAATTTTAATAATTATTACTACCATAATACATATTATAATGCTG
CTAGATTGAAAAGTGAAATAGTTTGTGAATTATTATTGGTTAAAGTTGAAAATATGAAAA
TAGGTCAAAAAATAGGTTCCTTTACCCTATATCAGCAAAAATAATATTCAATATTATTAT
TCAAACAACAACACACTTAAATCTGATGTCATCAATTTATCTAGATTGTAAGGCATAATA
ATTTTTAAGGAAATAAAATACATCGTTCTGTGAAGCAGTTACAAAAGAAA

>g4309.t7 Gene=g4309 Length=175
MSKIGINGFGRIGRLVLRAALDKGAQVVAVNDPFINVDYMVYMFKYDSTHGRFKGEVKAE
GGFLVINGQKITVFQERDPKNIAWGKAGAEYIVESTGVFTTIEKASAHFEGGAKKVIISA
PSADAPMFVCGVNLDAYDPSMKVVSNASCTTNCLAPLAKVVHDNFEIIEGLMTTL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g4309.t7 Gene3D G3DSA:3.40.50.720 - 1 169 6.3E-77
2 g4309.t7 PANTHER PTHR10836:SF103 GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE 2 3 175 2.8E-89
3 g4309.t7 PANTHER PTHR10836 GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE 3 175 2.8E-89
5 g4309.t7 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 108 121 5.6E-19
4 g4309.t7 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 143 161 5.6E-19
6 g4309.t7 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 170 175 5.6E-19
1 g4309.t7 Pfam PF00044 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain 3 101 6.0E-38
9 g4309.t7 ProSitePatterns PS00071 Glyceraldehyde 3-phosphate dehydrogenase active site. 147 154 -
8 g4309.t7 SMART SM00846 gp_dh_n_7 2 149 1.5E-96
7 g4309.t7 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 169 5.42E-77

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