General information for g4309.t30
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.t30 | isoform | g4309.t30 | 1118057 | 1120395 |
| chr_2 | g4309 | g4309.t30 | exon | g4309.t30.exon1 | 1118057 | 1119047 |
| chr_2 | g4309 | g4309.t30 | TTS | g4309.t30 | 1118060 | 1118060 |
| chr_2 | g4309 | g4309.t30 | cds | g4309.t30.CDS1 | 1118444 | 1118929 |
| chr_2 | g4309 | g4309.t30 | exon | g4309.t30.exon2 | 1119137 | 1119483 |
| chr_2 | g4309 | g4309.t30 | exon | g4309.t30.exon3 | 1120354 | 1120395 |
| chr_2 | g4309 | g4309.t30 | TSS | g4309.t30 | 1120395 | 1120395 |
Sequences
>g4309.t30 Gene=g4309 Length=1380
ATTCTGCATCGAGCTGCGGTCTTGAACAGACATAAACTAAAAACTTAATCGTATTCAGCA
AAGCTAAAGCAAACTAATCAAAAATGTCAAAGATCGGTATCAATGGTTTTGGACGTATTG
GACGTTTGGTCCTCCGTGCTGCTTTGGACAAGGGAGCTCAAGTTGTTGCTGTTAACGATC
CATTCATCAATGTTGACTATATGGTTTACATGTTCAAATATGACTCAACCCACGGTCGCT
TCAAGGGAGAGGTCAAGGCTGAAGGCGGTTTCTTAGTCATCAATGGACAAAAGATTACAG
TTTTCCAAGAACGTGATCCAAAGAATATTGCATGGGGAAAGGCTGGCGCTGAATACATTG
TTGAATCAACTGGTGTTTTCACTACTATTCAACTTGGATGCATACGATCCATCAATGAAG
GTCGTCTCGAACGCTTCATGCACAACCAACTGCTTGGCTCCATTAGCTAAAGTTGTCCAC
GATAACTTCGAAATCATTGAGGGATTGATGACCACTGTTCATGCAACCACAGCTACACAA
AAGACCGTCGATGGCCCATCAGGCAAATTGTGGCGTGATGGACGTGGTGCTGCTCAAAAT
ATCATTCCAGCAGCTACTGGAGCAGCTAAGGCTGTCGGAAAAGTTATTCCAGCTTTGAAT
GGAAAATTGACTGGTATGGCTTTCCGTGTTCCAACTGCTGATGTTTCAGTCGTTGATTTG
ACTGTTCGCCTCGCTAAGCCAGCTCCTTATGCCGAAATCAAGAAGAAGGTTAAGGAAGCC
GCTGAAGGTCCAATGAAGGGAATTTTGGATTACACTGAAGATGAAGTTGTCTCAACTGAT
TTCACCAGTGACACACACTCATCTGTCTTTGATGCCGCCGCTGGTATTCCATTGAATGAC
CACTTCGTTAAGCTCATCTCATGGTACGATAACGAATACGGTTACTCCAACCGCGTTGTC
GATCTCATCAAGTACATGCAAAGCAAGGATTAAATCAATTGTTACTAAATGATTCCAGTC
CTTCAATTTAAAAAATGAGAAGCATCACAACATCTGCATGCAGATTCTTTTAAATAATTA
AAAAGTGATTGGTGACACACACGTATGAATTTTAATAATTATTACTACCATAATACATAT
TATAATGCTGCTAGATTGAAAAGTGAAATAGTTTGTGAATTATTATTGGTTAAAGTTGAA
AATATGAAAATAGGTCAAAAAATAGGTTCCTTTACCCTATATCAGCAAAAATAATATTCA
ATATTATTATTCAAACAACAACACACTTAAATCTGATGTCATCAATTTATCTAGATTGTA
AGGCATAATAATTTTTAAGGAAATAAAATACATCGTTCTGTGAAGCAGTTACAAAAGAAA
>g4309.t30 Gene=g4309 Length=161
MTTVHATTATQKTVDGPSGKLWRDGRGAAQNIIPAATGAAKAVGKVIPALNGKLTGMAFR
VPTADVSVVDLTVRLAKPAPYAEIKKKVKEAAEGPMKGILDYTEDEVVSTDFTSDTHSSV
FDAAAGIPLNDHFVKLISWYDNEYGYSNRVVDLIKYMQSKD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4309.t30 | Gene3D | G3DSA:3.30.360.10 | Dihydrodipicolinate Reductase; domain 2 | 1 | 142 | 0 |
| 2 | g4309.t30 | PANTHER | PTHR10836:SF103 | GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE 2 | 1 | 161 | 0 |
| 3 | g4309.t30 | PANTHER | PTHR10836 | GLYCERALDEHYDE 3-PHOSPHATE DEHYDROGENASE | 1 | 161 | 0 |
| 5 | g4309.t30 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 56 | 73 | 0 |
| 4 | g4309.t30 | PRINTS | PR00078 | Glyceraldehyde-3-phosphate dehydrogenase signature | 96 | 111 | 0 |
| 1 | g4309.t30 | Pfam | PF02800 | Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain | 1 | 140 | 0 |
| 6 | g4309.t30 | SUPERFAMILY | SSF55347 | Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain | 1 | 140 | 0 |
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: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.
