General information for g4300.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Malonate–CoA ligase ACSF3, mitochondrial.
Parent gene
- The parent gene g4300 is located on chr_2: 1088700..1090437 (+ 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 | g4300 | g4300.t4 | TSS | g4300.t4 | 1087998 | 1087998 |
| chr_2 | g4300 | g4300.t4 | isoform | g4300.t4 | 1088700 | 1090437 |
| chr_2 | g4300 | g4300.t4 | exon | g4300.t4.exon1 | 1088700 | 1090437 |
| chr_2 | g4300 | g4300.t4 | cds | g4300.t4.CDS1 | 1088909 | 1090108 |
| chr_2 | g4300 | g4300.t4 | TTS | g4300.t4 | 1090427 | 1090427 |
Sequences
>g4300.t4 Gene=g4300 Length=1738
CACAATATGAAGAAAAATTAAAACCATTGGCAGATAAATTGAAAAAACCACTTCATGTAA
TTGATCAGGCAGCTTTAATTGATGCTGAATCTACAAATCTTGATGAGGAATCGCTTCTAT
GTAATTTACCAAAAGGATCCTTTTATAAAAAATCTCCAGCTTTATTCTTATACACGAGTG
GTACAACTTCAAAGCCTAAAGGTGTTCAAATGACATATTCAAACCTTGAAGCACAAGTTT
CTAGTTTACAACATGCGTGGAATATTCAGTCAACGGATACTATTCTTCATGCTTTACCAC
TGCATCATACACATGGTATAATTAATGCACTGTTGCTTCCTTTGAGTGCTGGTGGAAAAG
TTATCATGTTACCGAAATTCGAATCAGATAATGTGTGGTCACATCTTTTAAACATCAATA
TGCCGCAAAAAGATCGTGTGACAGTTTTCATGGGAATTCCAACTATATTTAATTATCTTA
TTCAAGAATATGATAAGCTCTTTAGCAAATCCTCACAAATGACGGAATATATCAAGACAC
ATTGTCAAAACAAAATTCGTTTAATGATTTGCGGCAGTGCACCTCTTCCTAATACAGTTT
TTCAACGATGGAAAGATATTACAGGTCATAAGTTATTAGAACGTTATGGAATGACAGAGA
TTGGTATGTGTTTAAGCAATCCTTTAACAGAAAACAAAGTGAGACAGCGATTGCCAGGTT
TCGTTGGTCAACCATTACCAGGAGTCAAAGTACGCGTAGCAAATGCAGAAAATCCTAAAG
ACATTCTTCTTGAGGCAAGCGGTGAATATAACAAGGGAATTTGGTCACAAGAGCAAGAAG
ATAAGGCTGTTGTAAAAATTAAACAAGGATTGGCAAGTGATGCAGAAATTATTGGCAGTC
TTCAAGTGCAAGGACCTAGTGTATTTAAAGAATACTGGAATCGTGAATCGGTAACTAAAG
AAGCTTTCACAGAAGATGGTTTTTTTATAACTGGTGATACAGCTTGTTATGATCCAACAG
TAAACAGCTTTAAAATAATGGGCAGAAATTCTGTTGATATTCTTAAATCTAAAGGATATA
AGATATCAGCGTTAGAAATTGAAACAAAGTTATTAGAGAATCCCTTAATTGAAGATTGTG
CAGTTATTGGTGTGCCAGATGAAGTTCTTGGTCAGAAAATTATTGCATTAATAGTAAAAC
GCGTGAATAAAACGGCAGACGAAAGTACAGTGAATGAAACAGATAACTTGCTAACGTTAA
AAAAATGGTGTGAGAGTAAATTTGCTTCCTACAGTATGCCAACACTAACATTTGTCAGTA
GAATACCAAGAAATCAATTAGGAAAAGTAAACAAGGCCGAGTTAGTGAAGGATTTTGTAA
AGAAGGCCAACGAGGTACCTGCAAAGTGAATTGAACACTCTAAAACTAGTTTTACTAAAT
TCATGTGTTCCTTTTTGATTCGGAGTTCTTTTTCATTGCAAAATTACTTCTTTTGGCATA
AAATTAAATGTATTGGAATAAAAAGTTATTTTGCTGCGAACTAGTCAAAGCAAGAAAAGA
TCAATTTCATGAATTCATCTCACAGGTCATACTCTAATTAGAAGCATTTTATTACTTTCA
TTATCGCGTTTAAATTATTATTTACGAAAAAATTTATTTTGCTTATTCTATCTTATTAAA
ATTGATTGTTGATAATACGACTTGATAAATAAATTCACATGTGAATCAAAATAATAAA
>g4300.t4 Gene=g4300 Length=399
MTYSNLEAQVSSLQHAWNIQSTDTILHALPLHHTHGIINALLLPLSAGGKVIMLPKFESD
NVWSHLLNINMPQKDRVTVFMGIPTIFNYLIQEYDKLFSKSSQMTEYIKTHCQNKIRLMI
CGSAPLPNTVFQRWKDITGHKLLERYGMTEIGMCLSNPLTENKVRQRLPGFVGQPLPGVK
VRVANAENPKDILLEASGEYNKGIWSQEQEDKAVVKIKQGLASDAEIIGSLQVQGPSVFK
EYWNRESVTKEAFTEDGFFITGDTACYDPTVNSFKIMGRNSVDILKSKGYKISALEIETK
LLENPLIEDCAVIGVPDEVLGQKIIALIVKRVNKTADESTVNETDNLLTLKKWCESKFAS
YSMPTLTFVSRIPRNQLGKVNKAELVKDFVKKANEVPAK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4300.t4 | Gene3D | G3DSA:3.40.50.12780 | - | 1 | 279 | 0 |
| 7 | g4300.t4 | Gene3D | G3DSA:3.30.300.310 | - | 283 | 395 | 0 |
| 3 | g4300.t4 | PANTHER | PTHR43201 | ACYL-COA SYNTHETASE | 2 | 388 | 0 |
| 4 | g4300.t4 | PANTHER | PTHR43201:SF8 | FATTY ACID COA SYNTHETASE FAMILY | 2 | 388 | 0 |
| 2 | g4300.t4 | Pfam | PF00501 | AMP-binding enzyme | 1 | 280 | 0 |
| 1 | g4300.t4 | Pfam | PF13193 | AMP-binding enzyme C-terminal domain | 296 | 379 | 0 |
| 5 | g4300.t4 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 2 | 391 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K18660 (malonyl-CoA/methylmalonyl-CoA synthetase [EC:6.2.1.-])
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.
