General information for g15059.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 g15059 is located on chr_4: 3747581..3748198 (- 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 | g15059 | g15059.t1 | TTS | g15059.t1 | 3745446 | 3745446 |
| chr_4 | g15059 | g15059.t1 | isoform | g15059.t1 | 3745503 | 3748023 |
| chr_4 | g15059 | g15059.t1 | exon | g15059.t1.exon1 | 3745503 | 3745567 |
| chr_4 | g15059 | g15059.t1 | cds | g15059.t1.CDS1 | 3745503 | 3745567 |
| chr_4 | g15059 | g15059.t1 | exon | g15059.t1.exon2 | 3746135 | 3746422 |
| chr_4 | g15059 | g15059.t1 | cds | g15059.t1.CDS2 | 3746135 | 3746422 |
| chr_4 | g15059 | g15059.t1 | exon | g15059.t1.exon3 | 3746721 | 3746956 |
| chr_4 | g15059 | g15059.t1 | cds | g15059.t1.CDS3 | 3746721 | 3746956 |
| chr_4 | g15059 | g15059.t1 | exon | g15059.t1.exon4 | 3747033 | 3747369 |
| chr_4 | g15059 | g15059.t1 | cds | g15059.t1.CDS4 | 3747033 | 3747369 |
| chr_4 | g15059 | g15059.t1 | exon | g15059.t1.exon5 | 3747430 | 3747577 |
| chr_4 | g15059 | g15059.t1 | cds | g15059.t1.CDS5 | 3747430 | 3747577 |
| chr_4 | g15059 | g15059.t1 | exon | g15059.t1.exon6 | 3747988 | 3748023 |
| chr_4 | g15059 | g15059.t1 | cds | g15059.t1.CDS6 | 3747988 | 3748023 |
| chr_4 | g15059 | g15059.t1 | TSS | g15059.t1 | 3748398 | 3748398 |
Sequences
>g15059.t1 Gene=g15059 Length=1110
ATGCAATCTCAACTGAATTTAAAAGAAACTAAAATTATTAATTCTTCAGAACAAGACAAT
TTATCAACAAGCAAAGGACCATTCAGAACAGAAATAGTTTGGCGAAATGTTTTGATTTTT
GTTTTACTTCACATTTTTGCATTGCTTGGTTTATTTCATTTTGACAGACGAATGTTTTAT
TTTTCATTTGTTTATGGTTGGTTTGGATCTTATGGAATTTCAGCCGGTGCACATCGTTTG
TGGTGTCATAGAAGTTACAAAGCAAACCGCAAACTCGAATATATTTTATTGTTTCTAAAT
ACAATAGCAGTTCAAAATTCAGTCATTGAATGGGTTCGTGATCATCGAGTTCATCATAAA
TTTAGTGACACTGATGCAGATCCTCATAATTCACAACGTGGATTTTTCTTTTCTCATATG
GGCTGGCTATTGTGCAAAAAACATCCTGATGTGAAAAAATTTGGTGCAAAAATTGATATG
AGCGATTTAACAAGCGATTGGTTGTTGAGATTTCAACATAAGTATTATGTTCCATTGGCA
ATTTTAATCAGTTTTGCTCTTCCAATTTTTGTGTCAATGAAATTTTTTTCAACTTCATTC
AAAACCGCATTTTTTATGACTTCATTTCGTTATTTATTAACACTTCATATTACATGGATG
ATAAATTCTGTTTCACATATTGGAAATTGGAAACCGTATGATAAAAATATTGAACCAAGT
GATTCGAAACTTTTTGGAACTTTGACTTTTGGAGAAGGATGGCATAATTTCCACCACGTC
TTTCCATGGGATTATAAAGTTTCAGAACTTCCACTTTATCGCTACAATGTGACAATTCCA
TTCATTGACTTCTTTGCATGGCTTGGATGGGCAACAGATTTAAAAGTTGCATCTGAAGAT
ATGATTAGAAAACGAGTTCTTAGAACAGGTGATGGAAGTCATCCATATTCAATTGAAGCT
GCTAAAAACAAACAAATTTTCAACGAAATCAATAATAATTTAGAAAATGATGTTAAAAGG
GGAAATGAAGTCTATTGGGGCTTAAATGATGAAGATATACCAGAAGAAGACAGGCAAGAA
ATTGAAATATGGTGTAAAAAACATGATTAA
>g15059.t1 Gene=g15059 Length=369
MQSQLNLKETKIINSSEQDNLSTSKGPFRTEIVWRNVLIFVLLHIFALLGLFHFDRRMFY
FSFVYGWFGSYGISAGAHRLWCHRSYKANRKLEYILLFLNTIAVQNSVIEWVRDHRVHHK
FSDTDADPHNSQRGFFFSHMGWLLCKKHPDVKKFGAKIDMSDLTSDWLLRFQHKYYVPLA
ILISFALPIFVSMKFFSTSFKTAFFMTSFRYLLTLHITWMINSVSHIGNWKPYDKNIEPS
DSKLFGTLTFGEGWHNFHHVFPWDYKVSELPLYRYNVTIPFIDFFAWLGWATDLKVASED
MIRKRVLRTGDGSHPYSIEAAKNKQIFNEINNNLENDVKRGNEVYWGLNDEDIPEEDRQE
IEIWCKKHD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g15059.t1 | CDD | cd03505 | Delta9-FADS-like | 58 | 295 | 1.36159E-68 |
| 2 | g15059.t1 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 7 | 322 | 1.2E-114 |
| 3 | g15059.t1 | PANTHER | PTHR11351:SF31 | RE43130P | 7 | 322 | 1.2E-114 |
| 6 | g15059.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 34 | 54 | 3.3E-47 |
| 9 | g15059.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 78 | 98 | 3.3E-47 |
| 5 | g15059.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 115 | 144 | 3.3E-47 |
| 7 | g15059.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 176 | 194 | 3.3E-47 |
| 4 | g15059.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 208 | 229 | 3.3E-47 |
| 8 | g15059.t1 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 251 | 265 | 3.3E-47 |
| 1 | g15059.t1 | Pfam | PF00487 | Fatty acid desaturase | 62 | 274 | 5.0E-13 |
| 14 | g15059.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 31 | - |
| 19 | g15059.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 52 | - |
| 18 | g15059.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 53 | 57 | - |
| 23 | g15059.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 58 | 82 | - |
| 13 | g15059.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 83 | 93 | - |
| 22 | g15059.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 112 | - |
| 17 | g15059.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 113 | 174 | - |
| 21 | g15059.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 175 | 196 | - |
| 15 | g15059.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 197 | 202 | - |
| 20 | g15059.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 221 | - |
| 16 | g15059.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 222 | 369 | - |
| 10 | g15059.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 54 | - |
| 12 | g15059.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 81 | - |
| 11 | g15059.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 175 | 197 | - |
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