General information for g16896.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Acyl-CoA Delta(11) desaturase.
Parent gene
- The parent gene g16896 is located on chr_4: 11623499..11624419 (+ 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 | g16896 | g16896.t1 | TSS | g16896.t1 | 11622154 | 11622154 |
| chr_4 | g16896 | g16896.t1 | isoform | g16896.t1 | 11622192 | 11623677 |
| chr_4 | g16896 | g16896.t1 | exon | g16896.t1.exon1 | 11622192 | 11622898 |
| chr_4 | g16896 | g16896.t1 | cds | g16896.t1.CDS1 | 11622192 | 11622898 |
| chr_4 | g16896 | g16896.t1 | exon | g16896.t1.exon2 | 11623169 | 11623221 |
| chr_4 | g16896 | g16896.t1 | cds | g16896.t1.CDS2 | 11623169 | 11623221 |
| chr_4 | g16896 | g16896.t1 | exon | g16896.t1.exon3 | 11623317 | 11623357 |
| chr_4 | g16896 | g16896.t1 | cds | g16896.t1.CDS3 | 11623317 | 11623357 |
| chr_4 | g16896 | g16896.t1 | exon | g16896.t1.exon4 | 11623480 | 11623677 |
| chr_4 | g16896 | g16896.t1 | cds | g16896.t1.CDS4 | 11623480 | 11623677 |
| chr_4 | g16896 | g16896.t1 | TTS | g16896.t1 | 11623817 | 11623817 |
Sequences
>g16896.t1 Gene=g16896 Length=999
ATGAGCCAAGTAACTAAAAGTGTTATCGACGAAGATGAAGTGTTGAAGGAGTTGCTAGAA
AGACCTGTGAAAATTAAGATAATTTGGCACATTTTAATTTTAACAATTATTTTTCATATT
GAAGCAATTCGTGGATTTTATTTTGTGATAACTGGACAAGTTATGTGGCAGACTTTAGTT
TTTGCTGGAATTCTTTACATTTTTTCGGGTTTTGGTGTAGTTGCTGGTGTACACAGACTT
TGGTCGCATCGATCTTATAAAGTGAATTTCCCACTTCGATTTATTCTTGTCATTTTCAAT
AGCATTGCCTATCAAAAATCAGTCATCAGATGGGCACGCGATCACCGTGTTCATCATAAA
TATTGTGACACAAATGCTGATCCACATAATGTCAAACGTGGATTCTTTTATTCACATATA
GGCTGGCTTTTTTGTAAGAAACATCCAGCAACAATTGAAGCTGGAAAAAGAATTGATGTG
AGTGATTTGACAAGTGACAAACTTTTGTGGCTGCAGAACAAGTATTTCTTTTATATCAGT
CCATTGTTGTGCTTTATTTTACCAACATTAATTCCTGCTTACTTTTGGGGTGAAAAATTA
ATGAATGCATGGACTGTAGCAGCATGTTTGAGATTTATTCTATTTCTTCATGCAACTTTA
AGTATCAATAGTTTTGCCCATATGTATGGATATAAACCTTATGATGAATCAATTACGCCA
GTTCAAAGTTTATTTGTGTCAGTTATTTGCTTAGGTGATGGCTGGCATAATTATCATCAT
GTGTTTCCTTGGGATTACAAGTCTGATGAATTTGGTTCACATAATTTCAATCTCTCAGCA
ATGTTTATTGAATTTATGTCTAAACTTGGTTGGGCTTACGATTTAAGAACAACTCCATAC
AGTTCAATTGTTGCTCGTGCCAAAAAGACAGGTGATGGAGAAATTGCAAAGAATTTCTTG
GAAAATCTCAAAAGGTGTGGAAAATTGGATCTGTTTTAA
>g16896.t1 Gene=g16896 Length=332
MSQVTKSVIDEDEVLKELLERPVKIKIIWHILILTIIFHIEAIRGFYFVITGQVMWQTLV
FAGILYIFSGFGVVAGVHRLWSHRSYKVNFPLRFILVIFNSIAYQKSVIRWARDHRVHHK
YCDTNADPHNVKRGFFYSHIGWLFCKKHPATIEAGKRIDVSDLTSDKLLWLQNKYFFYIS
PLLCFILPTLIPAYFWGEKLMNAWTVAACLRFILFLHATLSINSFAHMYGYKPYDESITP
VQSLFVSVICLGDGWHNYHHVFPWDYKSDEFGSHNFNLSAMFIEFMSKLGWAYDLRTTPY
SSIVARAKKTGDGEIAKNFLENLKRCGKLDLF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 23 | g16896.t1 | CDD | cd03505 | Delta9-FADS-like | 55 | 296 | 1.63623E-68 |
| 2 | g16896.t1 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 23 | 314 | 5.4E-118 |
| 3 | g16896.t1 | PANTHER | PTHR11351:SF91 | DESATURASE 1, ISOFORM A-RELATED | 23 | 314 | 5.4E-118 |
| 7 | g16896.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 29 | 49 | 3.0E-49 |
| 9 | g16896.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 78 | 98 | 3.0E-49 |
| 5 | g16896.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 115 | 144 | 3.0E-49 |
| 6 | g16896.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 176 | 194 | 3.0E-49 |
| 4 | g16896.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 209 | 230 | 3.0E-49 |
| 8 | g16896.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 252 | 266 | 3.0E-49 |
| 1 | g16896.t1 | Pfam | PF00487 | Fatty acid desaturase | 56 | 277 | 2.3E-13 |
| 15 | g16896.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 26 | - |
| 22 | g16896.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 27 | 50 | - |
| 18 | g16896.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 51 | 55 | - |
| 20 | g16896.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 77 | - |
| 16 | g16896.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 78 | 174 | - |
| 19 | g16896.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 175 | 197 | - |
| 17 | g16896.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 198 | 202 | - |
| 21 | g16896.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 222 | - |
| 14 | g16896.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 223 | 332 | - |
| 12 | g16896.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 50 | - |
| 10 | g16896.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 77 | - |
| 11 | g16896.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 175 | 197 | - |
| 13 | g16896.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 225 | - |
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 transcript has been annotated with K00507 (stearoyl-CoA desaturase (Delta-9 desaturase))
Pathway
- This transcript belongs to the following pathways
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