Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA Delta(11) desaturase.

Parent gene

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 g15057 g15057.t8 TTS g15057.t8 3734473 3734473
chr_4 g15057 g15057.t8 isoform g15057.t8 3734658 3736102
chr_4 g15057 g15057.t8 exon g15057.t8.exon1 3734658 3735043
chr_4 g15057 g15057.t8 cds g15057.t8.CDS1 3734748 3735043
chr_4 g15057 g15057.t8 exon g15057.t8.exon2 3735209 3735781
chr_4 g15057 g15057.t8 cds g15057.t8.CDS2 3735209 3735781
chr_4 g15057 g15057.t8 exon g15057.t8.exon3 3735871 3736009
chr_4 g15057 g15057.t8 cds g15057.t8.CDS3 3735871 3736009
chr_4 g15057 g15057.t8 exon g15057.t8.exon4 3736067 3736102
chr_4 g15057 g15057.t8 cds g15057.t8.CDS4 3736067 3736102
chr_4 g15057 g15057.t8 TSS g15057.t8 NA NA

Sequences

>g15057.t8 Gene=g15057 Length=1134
ATGTCATCGTTTTCATCAAATGACACACTTGGCTTGACAAAAAATGTGAACTCATTATTT
CATATAAAACCTTTTAAAACGGAAATTGTTTGGCGCAATGTTATCATCTTTACCATCATA
CATTATTTAGCACTCAATGCATTTACTATGTGGGATTTTAGAGTTTTTGCATTTCATTAC
ATCTACGGTTGGGTTGGAGCATTTGGAATTTCTGCTGGTGCACATCGTTTATGGTGTCAT
CGAAGTTACAAAGCAAATAAGAAACTTGAATTGCTTCTACTTTATCTAAACACAATAGCA
GTTCAAAATTCAGTCATTGAATGGGTTCGTGATCATCGAGTTCATCACAAACATAGCGAT
ACTGATGCAGATCCTCATAATTCTAAACGTGGATTTTTCTTTTCTCATATGGGCTGGTTA
TTATGCAAAAAACATCCTGATGTGAAGAAATTCGGTTCAAAAATTGATATGAGCGATTTA
ATGAATAATCCATTGCTGAGATTTCAACATAAATATTATATACCACTTATTTTGTTGATC
AGTCAAATTATTCCAATTGCTTGCACAATTTATCTTTTTAACACGACAGTCTACACTTCA
TTTTGTTTTAGTATGAACAGATATTTCATGTCATTACATCGAACATGGTTTACAAACTCG
TTTGCTCATATTGGAACTTGGAAACCATATGACAAAAACATTGCATCAAGTGATTCGAAA
TTTTTTGGAACAATTTGCTTTGGTGAAGGCTGGCATAATTTCCACCATGTCTTTCCATGG
GATTACAAAGTTTCAGAACTTCCACTCTATCGCTACAACTTCACAATCGCTTTTATTGAC
TTCTTTGTATGGCTTGGATGGGCAACAGACCTAAAAGTAGCATCTGACGATATGATCAGA
AAAAGAGTTCTCAGAACTGGTGATGGAAGTCATCCATATTCAATTGAAGCTGCTAAAAAC
AAAATTGAATTTGATATTGCGCAAAATGTGTCAAGTTTATGTTGGGGATTGGGTAAACAA
GATAAATTTATGACATGCAATTAAATTTGACAATTTATTTTTTTAACAGGCGACAATGAT
ATGACTGAAGATGAAATGAATGGAATAAAAACACTACACCCAAAAAGTCAATAA

>g15057.t8 Gene=g15057 Length=347
MSSFSSNDTLGLTKNVNSLFHIKPFKTEIVWRNVIIFTIIHYLALNAFTMWDFRVFAFHY
IYGWVGAFGISAGAHRLWCHRSYKANKKLELLLLYLNTIAVQNSVIEWVRDHRVHHKHSD
TDADPHNSKRGFFFSHMGWLLCKKHPDVKKFGSKIDMSDLMNNPLLRFQHKYYIPLILLI
SQIIPIACTIYLFNTTVYTSFCFSMNRYFMSLHRTWFTNSFAHIGTWKPYDKNIASSDSK
FFGTICFGEGWHNFHHVFPWDYKVSELPLYRYNFTIAFIDFFVWLGWATDLKVASDDMIR
KRVLRTGDGSHPYSIEAAKNKIEFDIAQNVSSLCWGLGKQDKFMTCN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g15057.t8 CDD cd03505 Delta9-FADS-like 55 292 1.03925E-58
2 g15057.t8 PANTHER PTHR11351 ACYL-COA DESATURASE 24 322 3.8E-108
3 g15057.t8 PANTHER PTHR11351:SF31 RE43130P 24 322 3.8E-108
6 g15057.t8 PRINTS PR00075 Fatty acid desaturase family 1 signature 31 51 4.0E-42
9 g15057.t8 PRINTS PR00075 Fatty acid desaturase family 1 signature 75 95 4.0E-42
5 g15057.t8 PRINTS PR00075 Fatty acid desaturase family 1 signature 112 141 4.0E-42
7 g15057.t8 PRINTS PR00075 Fatty acid desaturase family 1 signature 173 191 4.0E-42
8 g15057.t8 PRINTS PR00075 Fatty acid desaturase family 1 signature 205 226 4.0E-42
4 g15057.t8 PRINTS PR00075 Fatty acid desaturase family 1 signature 248 262 4.0E-42
1 g15057.t8 Pfam PF00487 Fatty acid desaturase 57 271 1.3E-13
16 g15057.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 28 -
21 g15057.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 29 51 -
18 g15057.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 52 56 -
22 g15057.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 57 78 -
14 g15057.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 79 171 -
20 g15057.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 172 193 -
17 g15057.t8 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 194 268 -
19 g15057.t8 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 269 288 -
15 g15057.t8 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 289 347 -
11 g15057.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 29 51 -
13 g15057.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 56 78 -
12 g15057.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 176 198 -
10 g15057.t8 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 269 288 -

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