General information for g4348.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Very long-chain-fatty-acid–CoA ligase bubblegum.
Parent gene
- The parent gene g4348 is located on chr_2: 1469778..1470698 (+ 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 | g4348 | g4348.t2 | isoform | g4348.t2 | 1469778 | 1470698 |
| chr_2 | g4348 | g4348.t2 | exon | g4348.t2.exon1 | 1469778 | 1469781 |
| chr_2 | g4348 | g4348.t2 | exon | g4348.t2.exon2 | 1469835 | 1470197 |
| chr_2 | g4348 | g4348.t2 | cds | g4348.t2.CDS1 | 1469903 | 1470197 |
| chr_2 | g4348 | g4348.t2 | exon | g4348.t2.exon3 | 1470253 | 1470698 |
| chr_2 | g4348 | g4348.t2 | cds | g4348.t2.CDS2 | 1470253 | 1470698 |
| chr_2 | g4348 | g4348.t2 | TTS | g4348.t2 | 1471306 | 1471306 |
| chr_2 | g4348 | g4348.t2 | TSS | g4348.t2 | NA | NA |
Sequences
>g4348.t2 Gene=g4348 Length=813
GCTGCTCCTTTGAGTGTGGATACGAAAAGATATTTTTTAAGTCTCGATATTCCAATTATT
GAAATATTTGGTATGTCTGAATGCAGCGGAGGTCATTCATTTTCAGTAGTTGATTCTCCG
TCTTTTGAAACTATTGGTAAAGGATTACCAGGAACACTAACAAAATTGAGAAATCCCGAT
GCAAACGGACATGGAGAATTGATGGTTAAAGGACGACATGTTTGCATGGGGTATATTGAT
GATATGGACAAAACTTGTGAAACTATATTAGATGATGGATGGTTGGCTACAGGTGATATT
GCTTATATTGATCACGATGGATACATTTTTATTACTGGACGATTAAAGGATATAATTATA
ACAGCAGGTGGTGAAAATGTTGCACCTTATTATTGTGAACAACTTGTCAAAGCTGAGCTT
CCTGCTATCTCAAACGCTTTTCTCATAGGTGATAGAAGAAAGTATCTCACAATGCTTATC
TCATTGAAAACATTAATGGCGGCTGATTCTGGAATGCCACTTGATGAATTGGCTGATGAA
ACAATTAAATGGTTAGAAGGTTTAAATTTAAGTTATACAACATTAAGTGGCATTTTGAAT
GCTGGACCTGATCCTATTGTCTTGCGATCAATTCAAGAAGGCATTGATCGCGCCAATAAA
AAAGCTATCTCAAATGCACAGAAAATACAAAAATTCAGAATCTTGCCACATGATTTTAGC
ATTACTACAGGTGAAATTACACCAACAATGAAACTGAAAAGAAATGTTGTTGTTGAAAAG
TATAAAGATATCATTGACAGTATGTATCAATGA
>g4348.t2 Gene=g4348 Length=246
MSECSGGHSFSVVDSPSFETIGKGLPGTLTKLRNPDANGHGELMVKGRHVCMGYIDDMDK
TCETILDDGWLATGDIAYIDHDGYIFITGRLKDIIITAGGENVAPYYCEQLVKAELPAIS
NAFLIGDRRKYLTMLISLKTLMAADSGMPLDELADETIKWLEGLNLSYTTLSGILNAGPD
PIVLRSIQEGIDRANKKAISNAQKIQKFRILPHDFSITTGEITPTMKLKRNVVVEKYKDI
IDSMYQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4348.t2 | Gene3D | G3DSA:3.40.50.12780 | - | 1 | 94 | 0 |
| 2 | g4348.t2 | PANTHER | PTHR43272 | LONG-CHAIN-FATTY-ACID–COA LIGASE | 1 | 245 | 0 |
| 3 | g4348.t2 | PANTHER | PTHR43272:SF32 | LONG-CHAIN-FATTY-ACID–COA LIGASE ACSBG2 | 1 | 245 | 0 |
| 1 | g4348.t2 | Pfam | PF00501 | AMP-binding enzyme | 1 | 97 | 0 |
| 4 | g4348.t2 | SUPERFAMILY | SSF56801 | Acetyl-CoA synthetase-like | 1 | 245 | 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 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.
