General information for g3030.t6
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.t6 | isoform | g3030.t6 | 22212182 | 22213559 |
| chr_3 | g3030 | g3030.t6 | exon | g3030.t6.exon1 | 22212182 | 22212594 |
| chr_3 | g3030 | g3030.t6 | cds | g3030.t6.CDS1 | 22212286 | 22212585 |
| chr_3 | g3030 | g3030.t6 | exon | g3030.t6.exon2 | 22212679 | 22213559 |
| chr_3 | g3030 | g3030.t6 | TTS | g3030.t6 | 22214491 | 22214491 |
| chr_3 | g3030 | g3030.t6 | TSS | g3030.t6 | NA | NA |
Sequences
>g3030.t6 Gene=g3030 Length=1294
GCTTCGTCGTGGGAGGAATTTGCGGATTTGGTGTAACCGGTGGAGCCCATAGATTTTGGT
GTCATCGATCATATAAAGCTAAATTGCCACTTCGTATCATTCTTATGCTCTGCTATTGTA
CGGCTGGACAAAACACTCTCTATGATTGGGTACGAGATCATCGAGTTCATCATAAATGTA
AGTCACATAAATATTTTTGTTATGTCTTATTTTTTTGTAACAAAATTCATCTCTTTATAG
ATTCAGAGACTGACGCAGATCCACATAACTCAAACAGAGGCTTCTTCTTTGCTCATGTTG
GATGGTTGATGTTGCAAAAGCATCCAGAAGTTATTAAAAAAGGTCGTGCCATTGACATGA
GTGATGTTTTGGCCGATCCAGTTATTCAATTTCATCAAAAGTAAGTAGCACACCTTGAAA
TGAAAAAAACAAAAGAGAAGAGACGAATAAATTTCATAATTAAGTTCACTAACCAACACT
ACTTTAATTTGTAATTGCTAAGATTTTTCCCATTTTAAATGACGCATATGAGAGACACAT
TTTCTGCTGATTACTAAAAATATGAGCAAAGAAATGATTATAAACACTTGGAAAATATTA
CGTCAATTATTAAATGTTCATGTAACGAAAAATTTAAAACTTTCGATTTTTATTCTATTT
TACAGATATTTCATCCCTCTTAAAATTCTGTGTTGCTTCATTCTACCAACAATTGTGCCT
GTCTATTTCTGGGGTGAATCATGGTATATGGCTTTCATGTCACAAGCAGTTTTACGTTAT
CTCTTCAGTTTGAACTTTACTTGGTTGGTTAATTCGGCTGCTCACATGTGGGGCTATAAA
CCTTACGACAGGTAATCTCAACTCTTACCATGACAAAACTTTTAATGCATTTTCTTGTAA
TTAAATTATAGGAGAATAAATCCAGTCGAGAATGTTGCAGTTGCTGTTGTTGCTATGGGC
GAAGGATGGCATAATTATCATCATGTATTTCCTTGGGATTACAAAGCAGCTGAATTGGGA
GATTATAAATTAAACATTACAACTTTCTGGATAGACTTATTTGCTAAAATTGGTTGGGCT
TATGACTTAAAACAACCTTCTGAAGACTTGGTGAGAAAGACAGTTCAAAAATATGGTGAT
GGTTGTCATTCTGTGTGGGGACATGGACAATCAGAAAATATTCATGCACCTGTCGAGGTA
ACAAATTTAAAATTTGCCATTACAAAATTCTTTAATTGATTTGCATTTTCTTTAGGCAAT
TCCTGCACCAGGCGAAGAAAACCTTGGCTATTGA
>g3030.t6 Gene=g3030 Length=99
MLCYCTAGQNTLYDWVRDHRVHHKCKSHKYFCYVLFFCNKIHLFIDSETDADPHNSNRGF
FFAHVGWLMLQKHPEVIKKGRAIDMSDVLADPVIQFHQK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3030.t6 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 1 | 25 | 0 |
| 4 | g3030.t6 | PANTHER | PTHR11351:SF21 | GH07782P | 1 | 25 | 0 |
| 1 | g3030.t6 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 47 | 99 | 0 |
| 3 | g3030.t6 | PANTHER | PTHR11351:SF21 | GH07782P | 47 | 99 | 0 |
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.
