General information for g1402.t3
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 g1402 is located on chr_3: 10654225..10656742 (- 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 | g1402 | g1402.t3 | TTS | g1402.t3 | 10653242 | 10653242 |
| chr_3 | g1402 | g1402.t3 | isoform | g1402.t3 | 10653331 | 10654117 |
| chr_3 | g1402 | g1402.t3 | exon | g1402.t3.exon1 | 10653331 | 10653398 |
| chr_3 | g1402 | g1402.t3 | cds | g1402.t3.CDS1 | 10653331 | 10653398 |
| chr_3 | g1402 | g1402.t3 | exon | g1402.t3.exon2 | 10653456 | 10653773 |
| chr_3 | g1402 | g1402.t3 | cds | g1402.t3.CDS2 | 10653456 | 10653773 |
| chr_3 | g1402 | g1402.t3 | exon | g1402.t3.exon3 | 10653838 | 10653890 |
| chr_3 | g1402 | g1402.t3 | cds | g1402.t3.CDS3 | 10653838 | 10653890 |
| chr_3 | g1402 | g1402.t3 | exon | g1402.t3.exon4 | 10653950 | 10654117 |
| chr_3 | g1402 | g1402.t3 | cds | g1402.t3.CDS4 | 10653950 | 10654038 |
| chr_3 | g1402 | g1402.t3 | TSS | g1402.t3 | NA | NA |
Sequences
>g1402.t3 Gene=g1402 Length=607
AGTGCTTCTTATTTCACTCTCAATTCCAATTTTTATATCAACTTATATTTTTGGTGATAC
ATTTTCGGCTGCTTATCATATGAACATTTTTAGAATTGTCTTAGCATGGCATATAACTTG
GAGTATAAATTCTGTTTCACATATTTGGGGAAATCGACCCTTTGAAAAAGATATTTTGCC
AACTGATACTTTCATAATTGGTTTTCTTGCTTTTGGAGAAGGATGGCATAATTTTCATCA
TGTTTATCCGTGGGACTATAAAGTTTCTGAATTGCCCAATTATTATTGCAATTTTACAAT
TCCATTTATTGATTTCTTCGCATGGCTTGGTTGGGCGACAGATTTAAAAATGGCATCAGA
TGAGATGATCAGAAAAAGAATAATGAAAAGTGGTGATGGAACTCATAGATATTCAATAGA
GGAAGCAAAAAAGAAAAAGACAGCTAAAGAATTGTTAGATTTATTCAATAACAAAGTCTT
ACAAAAAAGCAATCCACATGAACTTGAAGGCGATTTTGCTGACACATATTGGGGATATGG
TGACAATGATATACCAGAAGAAGAAATAAAAGATATCACAATATTAAAACCAACAAAGGG
AAAATAA
>g1402.t3 Gene=g1402 Length=175
MNIFRIVLAWHITWSINSVSHIWGNRPFEKDILPTDTFIIGFLAFGEGWHNFHHVYPWDY
KVSELPNYYCNFTIPFIDFFAWLGWATDLKMASDEMIRKRIMKSGDGTHRYSIEEAKKKK
TAKELLDLFNNKVLQKSNPHELEGDFADTYWGYGDNDIPEEEIKDITILKPTKGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1402.t3 | CDD | cd03505 | Delta9-FADS-like | 3 | 90 | 1.63752E-33 |
| 1 | g1402.t3 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 4 | 119 | 1.3E-41 |
| 2 | g1402.t3 | PANTHER | PTHR11351:SF61 | RH14937P | 4 | 119 | 1.3E-41 |
| 3 | g1402.t3 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 3 | 24 | 1.0E-11 |
| 4 | g1402.t3 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 46 | 60 | 1.0E-11 |
| 5 | g1402.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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. There were no conditions that were differentially expressed