General information for g3031.t19
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 g3031 is located on chr_3: 22218013..22218920 (+ 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 | g3031 | g3031.t19 | isoform | g3031.t19 | 22214088 | 22218920 |
| chr_3 | g3031 | g3031.t19 | exon | g3031.t19.exon1 | 22214088 | 22214235 |
| chr_3 | g3031 | g3031.t19 | TSS | g3031.t19 | 22214096 | 22214096 |
| chr_3 | g3031 | g3031.t19 | exon | g3031.t19.exon2 | 22216840 | 22217139 |
| chr_3 | g3031 | g3031.t19 | cds | g3031.t19.CDS1 | 22216905 | 22217139 |
| chr_3 | g3031 | g3031.t19 | exon | g3031.t19.exon3 | 22217238 | 22217379 |
| chr_3 | g3031 | g3031.t19 | cds | g3031.t19.CDS2 | 22217238 | 22217379 |
| chr_3 | g3031 | g3031.t19 | exon | g3031.t19.exon4 | 22217443 | 22217784 |
| chr_3 | g3031 | g3031.t19 | cds | g3031.t19.CDS3 | 22217443 | 22217784 |
| chr_3 | g3031 | g3031.t19 | exon | g3031.t19.exon5 | 22217853 | 22217925 |
| chr_3 | g3031 | g3031.t19 | cds | g3031.t19.CDS4 | 22217853 | 22217925 |
| chr_3 | g3031 | g3031.t19 | exon | g3031.t19.exon6 | 22217988 | 22218920 |
| chr_3 | g3031 | g3031.t19 | cds | g3031.t19.CDS5 | 22217988 | 22218251 |
| chr_3 | g3031 | g3031.t19 | TTS | g3031.t19 | 22218909 | 22218909 |
Sequences
>g3031.t19 Gene=g3031 Length=1938
GCAAGTTTTGTCATTAATTTCTTGATTCTTCAGAGAAGAAGTAATAAATTGTGAATAGAA
ATTTTTTAAAGCATGAAAGTGTATTAAATATACTGTGAAATTAACAAATTACAATTTATA
CACACCAAGATTTGGCAATTATTCTTGGATACACTTTTTTTGCGCAGGCAACTTTATAGT
TTATTAAAGTTTGATATTCACGATTAACAAAAAATGGCTCCGCGTGAAGTCGTTAAAACT
TCAGAGATTTCCGTTAGTGGTGTATTGGATGAAAATGACATCGAAACAATTGATGGAGGA
TTGAAACAGCCATCACAAGGATATGCTAGACGCCGCAATTTAAAACTTGTTTGGCGCAAT
ATTATTCTTTTTGCGTATCTTCATCTTGCTGCAGTATATGGTTTATGGCTTATGTTAACT
TCTGCAAAATGGACTACAGGAATTTTCGCTGGTGCTCATCGTCTATGGGCTCATCGTGCA
TACAAAGCTAAATGGCCATTACGCATTATTCTTACTATTTTCAATACAATTGCTTTCCAA
GATTGCGCAATCCATTGGGCACGCGATCATCGAGTACATCATAAATACAGTGAAACTGAC
GCTGATCCACATAATGCAACACGCGGTTTCTTCTTCTCTCATATCGGCTGGCTCTTGTGT
CGTAAACATCCTGATGTTATTGCTGCCGGCAAGAAATTAGATATTTCCGATCTTGAGAAT
GATCCAATTTTACGATTCCAAAGAAAATACTATTTGATTCTCATGCCATTGCTATGCTTC
ATCATCCCAACAATCATTCCTGTCTTCTGGTGGGGCGAAACATGGAAAAATGCATGGTTT
GTTGCAACAATGTTCCGTTACACATTTATTCTCAATGTAACCTGGTTGGTTAACAGTGCA
GCTCACAAATATGGTGATAAACCCTATGACAAATATATCAGTCCATCAGAGAATATGTCA
GTTGCTATCTTTGCTCTTGGTGAGGGATTCCACAATTACCACCATGTTTTCCCCTGGGAT
TACAAAACAGCTGAACTCGGCAACTACAGAATGAATTTCACTACAGCATTTATTGATTTC
TTTGCTAAGATTGGCTGGGCTTATGATTTGAAGACCGTGTCAAATGAAATTATTCAAAAA
CGTGTTGAAAGAACGGGAGATGGCACTCATAAGTCATCCAGAGATTCGACTTTATGGGGA
TATGGTGATCCAGCACAAAATGAAGAAGAAAAGAATATGATACCAATTTTACACAAAAAA
GAAGACTAATTTATTAATTCTTAATTTCACTTTTCTTCTAAAGAAACATACAAAAAAATC
GTATTAAAAATATTTAATATTTAATATAATGGATGTGGATCTCCAGTGAATTAAACTATT
TCTTTTCGCTGTATCAATTGAAAATTATCAATAGTTCTGAAAGTAAAACTTTAAATACCT
AAAGAAAGAAGTGGTTGAAGATTAACTTGATTCAGGTTTTTGCACGCAGTTCACTGGAAC
AACAACACATAGAAAACTTTAATACAAATTATATATATCAACATATTTTTGGATAATGAC
TACTAAAAGTAATAATATTGCAGAACGAATAAGAAGAAAAAGAGATCTTAATTCTTTTTT
TCGCTCTCTCTCTCTCTCTATATATATATATAATGATGATTTGATATGGAAACATAACTG
TCTTAAAAATAAGTTAGTGAGAGAGAAATTGGACATTTTGTAATATGTAAAAGAAAGTAA
ATATAGAACAAGATTCCATTGGAATTAAGAATTCTGTATTTTTATTAGATAGTTGTCTAG
AGAAAAAGAATATTTAGGCTGCTCATTCATTGCACCTCTTAACAAATTTCATTATTATAA
AACTCATTTAAAAATGCATCTCACAAATGTTTGGGTGAGCAGCTGAAATAAAAATCAACT
TAAAATCTATTAAATGTT
>g3031.t19 Gene=g3031 Length=351
MAPREVVKTSEISVSGVLDENDIETIDGGLKQPSQGYARRRNLKLVWRNIILFAYLHLAA
VYGLWLMLTSAKWTTGIFAGAHRLWAHRAYKAKWPLRIILTIFNTIAFQDCAIHWARDHR
VHHKYSETDADPHNATRGFFFSHIGWLLCRKHPDVIAAGKKLDISDLENDPILRFQRKYY
LILMPLLCFIIPTIIPVFWWGETWKNAWFVATMFRYTFILNVTWLVNSAAHKYGDKPYDK
YISPSENMSVAIFALGEGFHNYHHVFPWDYKTAELGNYRMNFTTAFIDFFAKIGWAYDLK
TVSNEIIQKRVERTGDGTHKSSRDSTLWGYGDPAQNEEEKNMIPILHKKED
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g3031.t19 | CDD | cd03505 | Delta9-FADS-like | 76 | 300 | 5.75221E-69 |
| 23 | g3031.t19 | MobiDBLite | mobidb-lite | consensus disorder prediction | 314 | 333 | - |
| 2 | g3031.t19 | PANTHER | PTHR11351 | ACYL-COA DESATURASE | 13 | 351 | 3.0E-175 |
| 3 | g3031.t19 | PANTHER | PTHR11351:SF91 | DESATURASE 1, ISOFORM A-RELATED | 13 | 351 | 3.0E-175 |
| 6 | g3031.t19 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 47 | 67 | 6.2E-35 |
| 4 | g3031.t19 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 180 | 198 | 6.2E-35 |
| 7 | g3031.t19 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 213 | 234 | 6.2E-35 |
| 5 | g3031.t19 | PRINTS | PR00075 | Fatty acid desaturase family 1 signature | 256 | 270 | 6.2E-35 |
| 1 | g3031.t19 | Pfam | PF00487 | Fatty acid desaturase | 63 | 267 | 2.2E-15 |
| 8 | g3031.t19 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 44 | - |
| 16 | g3031.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 68 | - |
| 12 | g3031.t19 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 69 | 93 | - |
| 15 | g3031.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 116 | - |
| 10 | g3031.t19 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 117 | 178 | - |
| 14 | g3031.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 179 | 201 | - |
| 11 | g3031.t19 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 202 | 206 | - |
| 13 | g3031.t19 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 207 | 226 | - |
| 9 | g3031.t19 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 227 | 351 | - |
| 22 | g3031.t19 | ProSitePatterns | PS00476 | Fatty acid desaturases family 1 signature. | 256 | 270 | - |
| 21 | g3031.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 67 | - |
| 20 | g3031.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 94 | 116 | - |
| 19 | g3031.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 179 | 201 | - |
| 18 | g3031.t19 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 206 | 228 | - |
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.
