General information for g3725.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 g3725 is located on chr_3: 27671371..27672160 (+ 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 | g3725 | g3725.t1 | TSS | g3725.t1 | 27668910 | 27668910 |
| chr_3 | g3725 | g3725.t1 | isoform | g3725.t1 | 27669021 | 27672160 |
| chr_3 | g3725 | g3725.t1 | exon | g3725.t1.exon1 | 27669021 | 27669117 |
| chr_3 | g3725 | g3725.t1 | cds | g3725.t1.CDS1 | 27669021 | 27669117 |
| chr_3 | g3725 | g3725.t1 | exon | g3725.t1.exon2 | 27670597 | 27670957 |
| chr_3 | g3725 | g3725.t1 | cds | g3725.t1.CDS2 | 27670597 | 27670957 |
| chr_3 | g3725 | g3725.t1 | exon | g3725.t1.exon3 | 27671028 | 27671156 |
| chr_3 | g3725 | g3725.t1 | cds | g3725.t1.CDS3 | 27671028 | 27671156 |
| chr_3 | g3725 | g3725.t1 | exon | g3725.t1.exon4 | 27671373 | 27671555 |
| chr_3 | g3725 | g3725.t1 | cds | g3725.t1.CDS4 | 27671373 | 27671555 |
| chr_3 | g3725 | g3725.t1 | exon | g3725.t1.exon5 | 27671617 | 27671777 |
| chr_3 | g3725 | g3725.t1 | cds | g3725.t1.CDS5 | 27671617 | 27671777 |
| chr_3 | g3725 | g3725.t1 | exon | g3725.t1.exon6 | 27671919 | 27672160 |
| chr_3 | g3725 | g3725.t1 | cds | g3725.t1.CDS6 | 27671919 | 27672160 |
| chr_3 | g3725 | g3725.t1 | TTS | g3725.t1 | 27672325 | 27672325 |
Sequences
>g3725.t1 Gene=g3725 Length=1173
ATGGCTCCAAATTCGATAAGTACGGAGTCTGTGCCGAGTAGTTCATGTAATTCAGTTAAA
CCAAATACACCACCAGCATCGTCGTCATCATCAAAAGGTGTTGAAGAGAAGCCGACTGAA
GGTCAAGAAGATTGGACATGGACGTGGAGAGATGTAAAGCCTTTAAATACCCTCGTGCTC
ATATACCTTCATGTGGCCACATTTTATAGTTTCTTTAATTTACCTCATTGCTGGCAAACG
TACCTTCTTCAATTTTTAATTCTTCTCGGTGCAGCATTTGGTGTCACTGCAGGCAGTCAT
AGATATTTCACACATAGGTCGTATAGAGCAAACAATGCACTCAAATATTTTCTTATTTTT
TTGCAAACACTGAGTGCACAAGAAGACATTTTGAAATGGGTACGCGATCATCGAGTTCAT
CATAAATTTACTGACACTAATGCAGATCCTCATAATTCAAAACGGGGATTCTTTTTCTCG
CATTGCGGTTGGTTGTTCATACGTAAGCATCCAGACGTTACTACATTTGGGAAGAAAGTC
GATATGTCTGATTTGGAAAATGATAAAGTTTTGCTATTTCATAAAATGATTTACATGCCT
GCATCGTGGATTGTCGCATTTATTGGACCAGTATGGGGTGCGCATTATTTGTGGGGCGAG
GACTTAAGTGCATCGTGGCATTTTAATGTCGTTAGATATACACTCGGACTTCATGTCAAT
TGGAGTATTAATTCATTTGCACATATCTGGGGCATGCGACCTTTCGATAGAAACAACTCA
TCAAGAGACAGCTATATATTTGGATTCTTGGCATTTGGTGAAGGATGGCATAACTTCCAT
CATGCTTTCCCTTGGGATTATAAAACCGGAGAACTTGGAAATTATTGGTTCAATTTTTCA
ATGATATTCATCGATTTCTTCGCTTGGTTAGGATGGGCGACCGATCTCAAGACAGTCCCC
GATTCTGTTGTGAAGAAACGAGTGTTGAGAACAGGAGATGGAACTCACCGATATTCAATT
GAAGCAAAAAAGAACAATGAAAAGATTGAAGAAGAAGTTAAAAATAATAACGACGGTGAA
AGGGATCTTGATCATTTCTGGGGTTGGGGAGATGAAGATATGCAATGTGAAGATATCAAA
GATGTCGCAATTCTTCATAAACATTATGAATAG
>g3725.t1 Gene=g3725 Length=390
MAPNSISTESVPSSSCNSVKPNTPPASSSSSKGVEEKPTEGQEDWTWTWRDVKPLNTLVL
IYLHVATFYSFFNLPHCWQTYLLQFLILLGAAFGVTAGSHRYFTHRSYRANNALKYFLIF
LQTLSAQEDILKWVRDHRVHHKFTDTNADPHNSKRGFFFSHCGWLFIRKHPDVTTFGKKV
DMSDLENDKVLLFHKMIYMPASWIVAFIGPVWGAHYLWGEDLSASWHFNVVRYTLGLHVN
WSINSFAHIWGMRPFDRNNSSRDSYIFGFLAFGEGWHNFHHAFPWDYKTGELGNYWFNFS
MIFIDFFAWLGWATDLKTVPDSVVKKRVLRTGDGTHRYSIEAKKNNEKIEEEVKNNNDGE
RDLDHFWGWGDEDMQCEDIKDVAILHKHYE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 30 | g3725.t1 | CDD | cd03505 | Delta9-FADS-like | 78 | 317 | 1.0754E-66 |
| 15 | g3725.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 39 | - |
| 16 | g3725.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - |
| 2 | g3725.t1 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 28 | 355 | 1.8E-110 |
| 3 | g3725.t1 | PANTHER | PTHR11351:SF31 | RE43130P | 28 | 355 | 1.8E-110 |
| 10 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 54 | 74 | 4.0E-45 |
| 7 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 77 | 99 | 4.0E-45 |
| 5 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 100 | 120 | 4.0E-45 |
| 6 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 137 | 166 | 4.0E-45 |
| 8 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 198 | 216 | 4.0E-45 |
| 4 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 230 | 251 | 4.0E-45 |
| 9 | g3725.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 273 | 287 | 4.0E-45 |
| 1 | g3725.t1 | Pfam | PF00487 | Fatty acid desaturase | 81 | 284 | 1.1E-11 |
| 17 | g3725.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 54 | - |
| 26 | g3725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 72 | - |
| 23 | g3725.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 73 | 77 | - |
| 24 | g3725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 78 | 99 | - |
| 20 | g3725.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 100 | 196 | - |
| 25 | g3725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 197 | 218 | - |
| 22 | g3725.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 219 | 229 | - |
| 29 | g3725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 230 | 252 | - |
| 19 | g3725.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 253 | 263 | - |
| 28 | g3725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 264 | 283 | - |
| 21 | g3725.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 284 | 294 | - |
| 27 | g3725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 312 | - |
| 18 | g3725.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 313 | 390 | - |
| 13 | g3725.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 72 | - |
| 12 | g3725.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 82 | 104 | - |
| 11 | g3725.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 197 | 219 | - |
| 14 | g3725.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 292 | 314 | - |
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 K20416 (palmitoyl-[glycerolipid] 7-desaturase)
Pathway
This gene does not belong to any 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.
