General information for g4309.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Glyceraldehyde-3-phosphate dehydrogenase.
Parent gene
- The parent gene g4309 is located on chr_2: 1118444..1120395 (- strand)
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.t10 | isoform | g4309.t10 | 1118057 | 1120090 |
| chr_2 | g4309 | g4309.t10 | exon | g4309.t10.exon1 | 1118057 | 1119483 |
| chr_2 | g4309 | g4309.t10 | TTS | g4309.t10 | 1118060 | 1118060 |
| chr_2 | g4309 | g4309.t10 | cds | g4309.t10.CDS1 | 1118444 | 1119442 |
| chr_2 | g4309 | g4309.t10 | exon | g4309.t10.exon2 | 1120086 | 1120090 |
| chr_2 | g4309 | g4309.t10 | TSS | g4309.t10 | 1120395 | 1120395 |
Sequences
>g4309.t10 Gene=g4309 Length=1432
ATAAAACTTAATCGTATTCAGCAAAGCTAAAGCAAACTAATCAAAAATGTCAAAGATCGG
TATCAATGGTTTTGGACGTATTGGACGTTTGGTCCTCCGTGCTGCTTTGGACAAGGGAGC
TCAAGTTGTTGCTGTTAACGATCCATTCATCAATGTTGACTATATGGTTTACATGTTCAA
ATATGACTCAACCCACGGTCGCTTCAAGGGAGAGGTCAAGGCTGAAGGCGGTTTCTTAGT
CATCAATGGACAAAAGATTACAGTTTTCCAAGAACGTGATCCAAAGAATATTGCATGGGG
AAAGGCTGGCGCTGAATACATTGTTGAATCAACTGGTGTTTTCACTACTATTGAAAAGGC
ATCAGCTCACTTTGAAGGCGGTGCAAAGAAAGTCATTATCTCAGCTCCATCAGCTGATGC
ACCAATGTTCGTTTGCGGTGTCAACTTGGATGCATACGATCCATCAATGAAGGTCGTCTC
GAACGCTTCATGCACAACCAACTGCTTGGCTCCATTAGCTAAAGTTGTCCACGATAACTT
CGAAATCATTGAGGGATTGATGACCACTGTTCATGCAACCACAGCTACACAAAAGACCGT
CGATGGCCCATCAGGCAAATTGTGGCGTGATGGACGTGGTGCTGCTCAAAATATCATTCC
AGCAGCTACTGGAGCAGCTAAGGCTGTCGGAAAAGTTATTCCAGCTTTGAATGGAAAATT
GACTGGTATGGCTTTCCGTGTTCCAACTGCTGATGTTTCAGTCGTTGATTTGACTGTTCG
CCTCGCTAAGCCAGCTCCTTATGCCGAAATCAAGAAGAAGGTTAAGGAAGCCGCTGAAGG
TCCAATGAAGGGAATTTTGGATTACACTGAAGATGAAGTTGTCTCAACTGATTTCACCAG
TGACACACACTCATCTGTCTTTGATGCCGCCGCTGGTATTCCATTGAATGACCACTTCGT
TAAGCTCATCTCATGGTACGATAACGAATACGGTTACTCCAACCGCGTTGTCGATCTCAT
CAAGTACATGCAAAGCAAGGATTAAATCAATTGTTACTAAATGATTCCAGTCCTTCAATT
TAAAAAATGAGAAGCATCACAACATCTGCATGCAGATTCTTTTAAATAATTAAAAAGTGA
TTGGTGACACACACGTATGAATTTTAATAATTATTACTACCATAATACATATTATAATGC
TGCTAGATTGAAAAGTGAAATAGTTTGTGAATTATTATTGGTTAAAGTTGAAAATATGAA
AATAGGTCAAAAAATAGGTTCCTTTACCCTATATCAGCAAAAATAATATTCAATATTATT
ATTCAAACAACAACACACTTAAATCTGATGTCATCAATTTATCTAGATTGTAAGGCATAA
TAATTTTTAAGGAAATAAAATACATCGTTCTGTGAAGCAGTTACAAAAGAAA
>g4309.t10 Gene=g4309 Length=332
MSKIGINGFGRIGRLVLRAALDKGAQVVAVNDPFINVDYMVYMFKYDSTHGRFKGEVKAE
GGFLVINGQKITVFQERDPKNIAWGKAGAEYIVESTGVFTTIEKASAHFEGGAKKVIISA
PSADAPMFVCGVNLDAYDPSMKVVSNASCTTNCLAPLAKVVHDNFEIIEGLMTTVHATTA
TQKTVDGPSGKLWRDGRGAAQNIIPAATGAAKAVGKVIPALNGKLTGMAFRVPTADVSVV
DLTVRLAKPAPYAEIKKKVKEAAEGPMKGILDYTEDEVVSTDFTSDTHSSVFDAAAGIPL
NDHFVKLISWYDNEYGYSNRVVDLIKYMQSKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4309.t10 | Gene3D | G3DSA:3.40.50.720 | - | 3 | 326 | 2.9E-155 |
| 13 | g4309.t10 | Gene3D | G3DSA:3.30.360.10 | Dihydrodipicolinate Reductase; domain 2 | 148 | 313 | 2.9E-155 |
| 3 | g4309.t10 | PANTHER | PTHR10836:SF103 | GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE 2 | 3 | 332 | 4.9E-187 |
| 4 | g4309.t10 | PANTHER | PTHR10836 | GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE | 3 | 332 | 4.9E-187 |
| 14 | g4309.t10 | PIRSF | PIRSF000149 | GAPDH | 1 | 332 | 4.5E-124 |
| 8 | g4309.t10 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 108 | 121 | 3.3E-48 |
| 6 | g4309.t10 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 143 | 161 | 3.3E-48 |
| 5 | g4309.t10 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 170 | 186 | 3.3E-48 |
| 7 | g4309.t10 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 227 | 244 | 3.3E-48 |
| 9 | g4309.t10 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 267 | 282 | 3.3E-48 |
| 2 | g4309.t10 | Pfam | PF00044 | Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain | 3 | 101 | 2.6E-37 |
| 1 | g4309.t10 | Pfam | PF02800 | Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain | 154 | 311 | 2.7E-66 |
| 15 | g4309.t10 | ProSitePatterns | PS00071 | Glyceraldehyde 3-phosphate dehydrogenase active site. | 147 | 154 | - |
| 16 | g4309.t10 | SMART | SM00846 | gp_dh_n_7 | 2 | 149 | 1.5E-96 |
| 10 | g4309.t10 | SUPERFAMILY | SSF51735 | NAD(P)-binding Rossmann-fold domains | 3 | 169 | 1.83E-76 |
| 11 | g4309.t10 | SUPERFAMILY | SSF55347 | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 148 | 311 | 1.65E-80 |
| 17 | g4309.t10 | TIGRFAM | TIGR01534 | GAPDH-I: glyceraldehyde-3-phosphate dehydrogenase, type I | 3 | 323 | 1.1E-127 |
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
- This transcript has been annotated with K00134 (glyceraldehyde 3-phosphate dehydrogenase (phosphorylating))
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