General information for g3030.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Acyl-CoA Delta(11) desaturase.
Parent gene
- The parent gene g3030 is located on chr_3: 22212931..22220089 (+ 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 | g3030 | g3030.t13 | isoform | g3030.t13 | 22212579 | 22213559 |
| chr_3 | g3030 | g3030.t13 | exon | g3030.t13.exon1 | 22212579 | 22212581 |
| chr_3 | g3030 | g3030.t13 | exon | g3030.t13.exon2 | 22212931 | 22213116 |
| chr_3 | g3030 | g3030.t13 | cds | g3030.t13.CDS1 | 22213013 | 22213116 |
| chr_3 | g3030 | g3030.t13 | exon | g3030.t13.exon3 | 22213177 | 22213462 |
| chr_3 | g3030 | g3030.t13 | cds | g3030.t13.CDS2 | 22213177 | 22213462 |
| chr_3 | g3030 | g3030.t13 | exon | g3030.t13.exon4 | 22213521 | 22213559 |
| chr_3 | g3030 | g3030.t13 | cds | g3030.t13.CDS3 | 22213521 | 22213559 |
| chr_3 | g3030 | g3030.t13 | TTS | g3030.t13 | 22214491 | 22214491 |
| chr_3 | g3030 | g3030.t13 | TSS | g3030.t13 | NA | NA |
Sequences
>g3030.t13 Gene=g3030 Length=514
AAAATATTTCATCCCTCTTAAAATTCTGTGTTGCTTCATTCTACCAACAATTGTGCCTGT
CTATTTCTGGGGTGAATCATGGTATATGGCTTTCATGTCACAAGCAGTTTTACGTTATCT
CTTCAGTTTGAACTTTACTTGGTTGGTTAATTCGGCTGCTCACATGTGGGGCTATAAACC
TTACGACAGGAGAATAAATCCAGTCGAGAATGTTGCAGTTGCTGTTGTTGCTATGGGCGA
AGGATGGCATAATTATCATCATGTATTTCCTTGGGATTACAAAGCAGCTGAATTGGGAGA
TTATAAATTAAACATTACAACTTTCTGGATAGACTTATTTGCTAAAATTGGTTGGGCTTA
TGACTTAAAACAACCTTCTGAAGACTTGGTGAGAAAGACAGTTCAAAAATATGGTGATGG
TTGTCATTCTGTGTGGGGACATGGACAATCAGAAAATATTCATGCACCTGTCGAGGCAAT
TCCTGCACCAGGCGAAGAAAACCTTGGCTATTGA
>g3030.t13 Gene=g3030 Length=142
MAFMSQAVLRYLFSLNFTWLVNSAAHMWGYKPYDRRINPVENVAVAVVAMGEGWHNYHHV
FPWDYKAAELGDYKLNITTFWIDLFAKIGWAYDLKQPSEDLVRKTVQKYGDGCHSVWGHG
QSENIHAPVEAIPAPGEENLGY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g3030.t13 | CDD | cd03505 | Delta9-FADS-like | 8 | 95 | 3.2833E-33 |
| 1 | g3030.t13 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 1 | 124 | 4.9E-63 |
| 2 | g3030.t13 | PANTHER | PTHR11351:SF21 | GH07782P | 1 | 124 | 4.9E-63 |
| 4 | g3030.t13 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 8 | 29 | 1.8E-15 |
| 3 | g3030.t13 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 51 | 65 | 1.8E-15 |
| 8 | g3030.t13 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 23 | - |
| 9 | g3030.t13 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 6 | - |
| 10 | g3030.t13 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 7 | 15 | - |
| 11 | g3030.t13 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 23 | - |
| 7 | g3030.t13 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 24 | 142 | - |
| 6 | g3030.t13 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 23 | - |
| 5 | g3030.t13 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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:0055114 | NA | NA |
| GO:0016717 | oxidoreductase activity, acting on paired donors, with oxidation of a pair of donors resulting in the reduction of molecular oxygen to two molecules of water | 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.
