General information for g402.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 2-amino-3-ketobutyrate coenzyme A ligase, mitochondrial.
Parent gene
- The parent gene g402 is located on chr_3: 3174202..3175575 (- 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_3 | g402 | g402.t3 | TTS | g402.t3 | 3174044 | 3174044 |
| chr_3 | g402 | g402.t3 | isoform | g402.t3 | 3174202 | 3174960 |
| chr_3 | g402 | g402.t3 | exon | g402.t3.exon1 | 3174202 | 3174624 |
| chr_3 | g402 | g402.t3 | cds | g402.t3.CDS1 | 3174202 | 3174624 |
| chr_3 | g402 | g402.t3 | exon | g402.t3.exon2 | 3174693 | 3174960 |
| chr_3 | g402 | g402.t3 | cds | g402.t3.CDS2 | 3174693 | 3174911 |
| chr_3 | g402 | g402.t3 | TSS | g402.t3 | 3175604 | 3175604 |
Sequences
>g402.t3 Gene=g402 Length=691
AGCATCGGATGCGAGAGTGAAATTGATTGTAAGTGATGGAGTTTTTTCTATGGATGGCAA
CATAGCACCGCTGCCTGATATTATCAATCTCGCTCGAAAATATAACGCAATAACATTTTT
GGACGATTGTCATGCCACAGGTTTCTTTGGAAAAACCGGTCGCGGAACTGAAGAATATTA
TGACATGATGGGTTCTGTTGATATTATTAATTCAACTTTAGGAAAAGCTCTTGGTGGCGC
TATGGGTGGCTATACAGTTGGTCCAAAAGAAGTTATCGAATTATTACGACAAAAATCTCG
TCCTTATCTCTTCAGCAATTCTCTTTCACCTGCAATTGTCGGTTGTGGCATTAAAGTTAT
GGACATGCTACTCAAACCAAATGATTTAGTTGGAAATCTTCAGAAAAATACAAAGAAATT
TCGTGATGGCATGACAAAGGCTGGCTTTAAAATTTCTGGAGAAAATCATCCTATTTCGCC
TGTCATGCTTGGTGATGCAAAACTTGCTCAAGATATGGCAAACGATTTACTTTCACATGG
CATTTATGTCATTGGTTTTAGCTTCCCTGTTGTGCCTAAAGGCAAAGCAAGAATTCGAGT
TCAAATTTCTGCCGCACACACTGAGGAAGAAATTGATCAAGCAATTAATGCATTTATCAC
TGTTGGACGTAAATATAATGTGATTAAATAA
>g402.t3 Gene=g402 Length=213
MDGNIAPLPDIINLARKYNAITFLDDCHATGFFGKTGRGTEEYYDMMGSVDIINSTLGKA
LGGAMGGYTVGPKEVIELLRQKSRPYLFSNSLSPAIVGCGIKVMDMLLKPNDLVGNLQKN
TKKFRDGMTKAGFKISGENHPISPVMLGDAKLAQDMANDLLSHGIYVIGFSFPVVPKGKA
RIRVQISAAHTEEEIDQAINAFITVGRKYNVIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g402.t3 | Gene3D | G3DSA:3.40.640.10 | - | 1 | 104 | 0 |
| 5 | g402.t3 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 105 | 212 | 0 |
| 2 | g402.t3 | PANTHER | PTHR13693:SF90 | 2-AMINO-3-KETOBUTYRATE COENZYME A LIGASE | 1 | 210 | 0 |
| 3 | g402.t3 | PANTHER | PTHR13693 | CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE | 1 | 210 | 0 |
| 1 | g402.t3 | Pfam | PF00155 | Aminotransferase class I and II | 1 | 201 | 0 |
| 4 | g402.t3 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 1 | 211 | 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:0009058 | biosynthetic process | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | MF |
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