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.t5 isoform g4309.t5 1118057 1119442
chr_2 g4309 g4309.t5 exon g4309.t5.exon1 1118057 1118373
chr_2 g4309 g4309.t5 TTS g4309.t5 1118060 1118060
chr_2 g4309 g4309.t5 cds g4309.t5.CDS1 1118360 1118373
chr_2 g4309 g4309.t5 exon g4309.t5.exon2 1118497 1119442
chr_2 g4309 g4309.t5 cds g4309.t5.CDS2 1118497 1119442
chr_2 g4309 g4309.t5 TSS g4309.t5 1120395 1120395

Sequences

>g4309.t5 Gene=g4309 Length=1263
ATGTCAAAGATCGGTATCAATGGTTTTGGACGTATTGGACGTTTGGTCCTCCGTGCTGCT
TTGGACAAGGGAGCTCAAGTTGTTGCTGTTAACGATCCATTCATCAATGTTGACTATATG
GTTTACATGTTCAAATATGACTCAACCCACGGTCGCTTCAAGGGAGAGGTCAAGGCTGAA
GGCGGTTTCTTAGTCATCAATGGACAAAAGATTACAGTTTTCCAAGAACGTGATCCAAAG
AATATTGCATGGGGAAAGGCTGGCGCTGAATACATTGTTGAATCAACTGGTGTTTTCACT
ACTATTGAAAAGGCATCAGCTCACTTTGAAGGCGGTGCAAAGAAAGTCATTATCTCAGCT
CCATCAGCTGATGCACCAATGTTCGTTTGCGGTGTCAACTTGGATGCATACGATCCATCA
ATGAAGGTCGTCTCGAACGCTTCATGCACAACCAACTGCTTGGCTCCATTAGCTAAAGTT
GTCCACGATAACTTCGAAATCATTGAGGGATTGATGACCACTGTTCATGCAACCACAGCT
ACACAAAAGACCGTCGATGGCCCATCAGGCAAATTGTGGCGTGATGGACGTGGTGCTGCT
CAAAATATCATTCCAGCAGCTACTGGAGCAGCTAAGGCTGTCGGAAAAGTTATTCCAGCT
TTGAATGGAAAATTGACTGGTATGGCTTTCCGTGTTCCAACTGCTGATGTTTCAGTCGTT
GATTTGACTGTTCGCCTCGCTAAGCCAGCTCCTTATGCCGAAATCAAGAAGAAGGTTAAG
GAAGCCGCTGAAGGTCCAATGAAGGGAATTTTGGATTACACTGAAGATGAAGTTGTCTCA
ACTGATTTCACCAGTGACACACACTCATCTGTCTTTGATGCCGCCGCTGGTATTCCATTG
AATGACCACTTCGTTAAGCTCATCTCATGGTACGATAACGAATACGATTCTTTTAAATAA
TTAAAAAGTGATTGGTGACACACACGTATGAATTTTAATAATTATTACTACCATAATACA
TATTATAATGCTGCTAGATTGAAAAGTGAAATAGTTTGTGAATTATTATTGGTTAAAGTT
GAAAATATGAAAATAGGTCAAAAAATAGGTTCCTTTACCCTATATCAGCAAAAATAATAT
TCAATATTATTATTCAAACAACAACACACTTAAATCTGATGTCATCAATTTATCTAGATT
GTAAGGCATAATAATTTTTAAGGAAATAAAATACATCGTTCTGTGAAGCAGTTACAAAAG
AAA

>g4309.t5 Gene=g4309 Length=319
MSKIGINGFGRIGRLVLRAALDKGAQVVAVNDPFINVDYMVYMFKYDSTHGRFKGEVKAE
GGFLVINGQKITVFQERDPKNIAWGKAGAEYIVESTGVFTTIEKASAHFEGGAKKVIISA
PSADAPMFVCGVNLDAYDPSMKVVSNASCTTNCLAPLAKVVHDNFEIIEGLMTTVHATTA
TQKTVDGPSGKLWRDGRGAAQNIIPAATGAAKAVGKVIPALNGKLTGMAFRVPTADVSVV
DLTVRLAKPAPYAEIKKKVKEAAEGPMKGILDYTEDEVVSTDFTSDTHSSVFDAAAGIPL
NDHFVKLISWYDNEYDSFK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g4309.t5 Gene3D G3DSA:3.40.50.720 - 3 315 2.3E-148
13 g4309.t5 Gene3D G3DSA:3.30.360.10 Dihydrodipicolinate Reductase; domain 2 148 313 2.3E-148
3 g4309.t5 PANTHER PTHR10836:SF103 GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE 2 3 315 5.6E-178
4 g4309.t5 PANTHER PTHR10836 GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE 3 315 5.6E-178
14 g4309.t5 PIRSF PIRSF000149 GAPDH 1 318 5.6E-117
8 g4309.t5 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 108 121 2.8E-48
6 g4309.t5 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 143 161 2.8E-48
5 g4309.t5 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 170 186 2.8E-48
7 g4309.t5 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 227 244 2.8E-48
9 g4309.t5 PRINTS PR00078 Glyceraldehyde-3-phosphate dehydrogenase signature 267 282 2.8E-48
2 g4309.t5 Pfam PF00044 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain 3 101 2.4E-37
1 g4309.t5 Pfam PF02800 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain 154 311 2.4E-66
15 g4309.t5 ProSitePatterns PS00071 Glyceraldehyde 3-phosphate dehydrogenase active site. 147 154 -
16 g4309.t5 SMART SM00846 gp_dh_n_7 2 149 1.5E-96
10 g4309.t5 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 169 1.65E-76
11 g4309.t5 SUPERFAMILY SSF55347 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 148 311 1.4E-80
17 g4309.t5 TIGRFAM TIGR01534 GAPDH-I: glyceraldehyde-3-phosphate dehydrogenase, type I 3 316 2.4E-123

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:0050661 NADP binding MF
GO:0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor MF
GO:0006006 glucose metabolic process BP
GO:0051287 NAD binding MF
GO:0055114 NA NA

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. There were no conditions that were differentially expressed