General information for g402.t1
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.t1 | TTS | g402.t1 | 3174044 | 3174044 |
| chr_3 | g402 | g402.t1 | isoform | g402.t1 | 3174202 | 3175575 |
| chr_3 | g402 | g402.t1 | exon | g402.t1.exon1 | 3174202 | 3174624 |
| chr_3 | g402 | g402.t1 | cds | g402.t1.CDS1 | 3174202 | 3174624 |
| chr_3 | g402 | g402.t1 | exon | g402.t1.exon2 | 3174693 | 3175486 |
| chr_3 | g402 | g402.t1 | cds | g402.t1.CDS2 | 3174693 | 3175486 |
| chr_3 | g402 | g402.t1 | exon | g402.t1.exon3 | 3175542 | 3175575 |
| chr_3 | g402 | g402.t1 | cds | g402.t1.CDS3 | 3175542 | 3175575 |
| chr_3 | g402 | g402.t1 | TSS | g402.t1 | 3175604 | 3175604 |
Sequences
>g402.t1 Gene=g402 Length=1251
ATGAAACTTTTGACAATACTCAATGTGCAGCGATTGCCATCACTTCGCTGCTATAGTCAA
GCGGCTCAAAATTTCCGCTCAATTCTTCAATCTCAATTGGACGACATTAAAGCGGCGGGA
ACTTATAAAACTGAACGCATCATAACTTCAGAACAAAAGTCAAAAATTTCCGTTGACGGT
CTATCGCGTAAAGTTATAAACTTTTGTGCCAACAATTATTTAGGTCTCAGTGCAAATGAG
GAAATTAAGCAATATTCAAAGGAAATGGTTGAAAAGTATGGTCATGGATTAAGCTCTGTA
CGTTTCATTTGTGGCACACAAAATATTCATAAAGAATTGGAAGCGAAAATTTCACAATTT
CATCAACGTGATGACACAATTCTTTATGCTGCTTGTTTTGACGCGAATGCGGGCATCTTC
GAAGTGATTTTGACACCGGAAGATGCTGTCTTTAGTGATGAACTCAATCACGCGAGTATC
ATTGATGGTTTAAGATTGTGTAAGGCACAGAAGCAAAGATATTTACATCGAGACATGAAT
GACCTTGAAGAGAAATTGAAAGCATCGGATGCGAGAGTGAAATTGATTGTAAGTGATGGA
GTTTTTTCTATGGATGGCAACATAGCACCGCTGCCTGATATTATCAATCTCGCTCGAAAA
TATAACGCAATAACATTTTTGGACGATTGTCATGCCACAGGTTTCTTTGGAAAAACCGGT
CGCGGAACTGAAGAATATTATGACATGATGGGTTCTGTTGATATTATTAATTCAACTTTA
GGAAAAGCTCTTGGTGGCGCTATGGGTGGCTATACAGTTGGTCCAAAAGAAGTTATCGAA
TTATTACGACAAAAATCTCGTCCTTATCTCTTCAGCAATTCTCTTTCACCTGCAATTGTC
GGTTGTGGCATTAAAGTTATGGACATGCTACTCAAACCAAATGATTTAGTTGGAAATCTT
CAGAAAAATACAAAGAAATTTCGTGATGGCATGACAAAGGCTGGCTTTAAAATTTCTGGA
GAAAATCATCCTATTTCGCCTGTCATGCTTGGTGATGCAAAACTTGCTCAAGATATGGCA
AACGATTTACTTTCACATGGCATTTATGTCATTGGTTTTAGCTTCCCTGTTGTGCCTAAA
GGCAAAGCAAGAATTCGAGTTCAAATTTCTGCCGCACACACTGAGGAAGAAATTGATCAA
GCAATTAATGCATTTATCACTGTTGGACGTAAATATAATGTGATTAAATAA
>g402.t1 Gene=g402 Length=416
MKLLTILNVQRLPSLRCYSQAAQNFRSILQSQLDDIKAAGTYKTERIITSEQKSKISVDG
LSRKVINFCANNYLGLSANEEIKQYSKEMVEKYGHGLSSVRFICGTQNIHKELEAKISQF
HQRDDTILYAACFDANAGIFEVILTPEDAVFSDELNHASIIDGLRLCKAQKQRYLHRDMN
DLEEKLKASDARVKLIVSDGVFSMDGNIAPLPDIINLARKYNAITFLDDCHATGFFGKTG
RGTEEYYDMMGSVDIINSTLGKALGGAMGGYTVGPKEVIELLRQKSRPYLFSNSLSPAIV
GCGIKVMDMLLKPNDLVGNLQKNTKKFRDGMTKAGFKISGENHPISPVMLGDAKLAQDMA
NDLLSHGIYVIGFSFPVVPKGKARIRVQISAAHTEEEIDQAINAFITVGRKYNVIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g402.t1 | CDD | cd06454 | KBL_like | 63 | 409 | 0.00000 |
| 6 | g402.t1 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 62 | 405 | 0.00000 |
| 7 | g402.t1 | Gene3D | G3DSA:3.40.640.10 | - | 79 | 314 | 0.00000 |
| 4 | g402.t1 | Hamap | MF_00985 | 2-amino-3-ketobutyrate coenzyme A ligase [kbl]. | 22 | 413 | 48.59717 |
| 2 | g402.t1 | PANTHER | PTHR13693:SF90 | 2-AMINO-3-KETOBUTYRATE COENZYME A LIGASE | 23 | 413 | 0.00000 |
| 3 | g402.t1 | PANTHER | PTHR13693 | CLASS II AMINOTRANSFERASE/8-AMINO-7-OXONONANOATE SYNTHASE | 23 | 413 | 0.00000 |
| 1 | g402.t1 | Pfam | PF00155 | Aminotransferase class I and II | 64 | 404 | 0.00000 |
| 5 | g402.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 26 | 414 | 0.00000 |
| 8 | g402.t1 | TIGRFAM | TIGR01822 | 2am3keto_CoA: glycine C-acetyltransferase | 26 | 415 | 0.00000 |
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 |
| GO:0008890 | glycine C-acetyltransferase activity | MF |
| GO:0006567 | threonine catabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K00639 (glycine C-acetyltransferase)
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