General information for g16389.t17
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 g16389 is located on chr_4: 9317104..9317789 (+ 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_4 | g16389 | g16389.t17 | isoform | g16389.t17 | 9313332 | 9317789 |
| chr_4 | g16389 | g16389.t17 | exon | g16389.t17.exon1 | 9313332 | 9313563 |
| chr_4 | g16389 | g16389.t17 | exon | g16389.t17.exon2 | 9313627 | 9313817 |
| chr_4 | g16389 | g16389.t17 | exon | g16389.t17.exon3 | 9314409 | 9314539 |
| chr_4 | g16389 | g16389.t17 | exon | g16389.t17.exon4 | 9315379 | 9315474 |
| chr_4 | g16389 | g16389.t17 | exon | g16389.t17.exon5 | 9317099 | 9317438 |
| chr_4 | g16389 | g16389.t17 | cds | g16389.t17.CDS1 | 9317143 | 9317438 |
| chr_4 | g16389 | g16389.t17 | exon | g16389.t17.exon6 | 9317501 | 9317789 |
| chr_4 | g16389 | g16389.t17 | cds | g16389.t17.CDS2 | 9317501 | 9317789 |
| chr_4 | g16389 | g16389.t17 | TTS | g16389.t17 | 9317882 | 9317882 |
| chr_4 | g16389 | g16389.t17 | TSS | g16389.t17 | NA | NA |
Sequences
>g16389.t17 Gene=g16389 Length=1279
ATGTTATTTTGCAAACCGGCATCGACGCCACTGACTTTATATGTTCCAATGTGTGTGCAA
AAAAAAGTTTAAATTATTTTTTTCCGATTTTTTAGAACGTTCAGTTGACGTGCATCAGTC
TCGGGATATTGAAGTAATTTTTAGTTCTTCCCGTTTTTTAATTGTCGATTTTTTCTTTCG
TGCTTTGTGAATTTTTTTAAATTTAATTAATACAAAAAAGGAAGAAAAAAATGGCGCCTG
ACGCAAAAGTACATCAAAATGTGATGAAAACGGAGAGTGATGAAAATTTAAAGTCTAATG
CACCCTTTCGTGCTGAAATTCAATGGCGTAATGTTGCCGTCAACTTGTTTATTCATCTTG
GTTTCTTCGTTGGACTCTATTATATAATTACATTCAAATTGCAACTAAAAACTTTCATTT
ACTTTTTCTTCCTGACATGCTTATGCAATTTGGGTGTCACGATCGGCGTTCACAGATTAT
GGAGTCACAGAAGTTTCAAATGCACTCGTCCAATTAAGCTTCTTCTTACCTTTTTTTACA
CAATGGCTGGTCAATCATCGATTTTCCATTGGGTTCAAATTCATCGAGTTCATCATAAAT
TTTCTGAAACTTTAAAGGATCCATTAGATGTGTGAGTATCAATGAACTTTTCGGTTGGTA
CTGTCTTTCATACCATCCAGAATGTGAAACTGAGATGAAGCGTATTGATATGGATGATAT
AAAGGCTGATAAAGACCTGATGTTCCAGTACAAGTACTATTCACATCTTTTCACACTTCT
CAATTTCCTTTCCGTTCTTATTCCATGCTATTTTTGGGGCGAATCATTCAAAATTGCTTT
TTGGGTTTGCTTTGTAACACGTTTTGCCATCAACTTTACACAATTAAATTTCACTAATAG
TGCAAATCATTTCATTGGAAAACGTCCTTATGATAAAACTCAATCAGCTACTGACAACAT
TGCTTGCACTATTTTCTCATTTGGAGAAGGGTATCATAATTATCATCATGTCTTTCCTTA
TGATTACCGTACTGGTGAATTTGGTGACATTGGTCACTACAATCTCTCAGCTGTCATCAT
TGATTTCTGGTACAAAATGGGATGGGTTTGGGATCGTAAACTTGTTTCACAAGACATGAT
CAATCGAAGAGTCTTAAGAACTGGCGATGGAAGTCATTGGTTGTCACATGATGAAGCCCA
TAAAAATTCAATCTATGGTTATGGTGATAAAGATATTGATGAAGCTGATCAGAAAGAATT
AGAAAGAATGATTGGCTAA
>g16389.t17 Gene=g16389 Length=194
MKRIDMDDIKADKDLMFQYKYYSHLFTLLNFLSVLIPCYFWGESFKIAFWVCFVTRFAIN
FTQLNFTNSANHFIGKRPYDKTQSATDNIACTIFSFGEGYHNYHHVFPYDYRTGEFGDIG
HYNLSAVIIDFWYKMGWVWDRKLVSQDMINRRVLRTGDGSHWLSHDEAHKNSIYGYGDKD
IDEADQKELERMIG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g16389.t17 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 2 | 192 | 9.0E-63 |
| 3 | g16389.t17 | PANTHER | PTHR11351:SF61 | RH14937P | 2 | 192 | 9.0E-63 |
| 6 | g16389.t17 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 21 | 39 | 3.0E-9 |
| 5 | g16389.t17 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 54 | 75 | 3.0E-9 |
| 4 | g16389.t17 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 97 | 111 | 3.0E-9 |
| 1 | g16389.t17 | Pfam | PF00487 | Fatty acid desaturase | 11 | 126 | 1.2E-10 |
| 9 | g16389.t17 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 13 | g16389.t17 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 42 | - |
| 11 | g16389.t17 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 43 | 47 | - |
| 12 | g16389.t17 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 48 | 67 | - |
| 10 | g16389.t17 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 68 | 194 | - |
| 8 | g16389.t17 | ProSitePatterns | PS00476 | Fatty acid desaturases family 1 signature. | 97 | 111 | - |
| 7 | g16389.t17 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 43 | - |
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 |
| GO:0006629 | lipid metabolic process | BP |
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