Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA desaturase 1.

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_3 g1406 g1406.t11 TTS g1406.t11 10674847 10674847
chr_3 g1406 g1406.t11 isoform g1406.t11 10675030 10687218
chr_3 g1406 g1406.t11 exon g1406.t11.exon1 10675030 10675301
chr_3 g1406 g1406.t11 exon g1406.t11.exon2 10675362 10675469
chr_3 g1406 g1406.t11 exon g1406.t11.exon3 10675983 10676035
chr_3 g1406 g1406.t11 cds g1406.t11.CDS1 10675995 10676035
chr_3 g1406 g1406.t11 exon g1406.t11.exon4 10676113 10676489
chr_3 g1406 g1406.t11 cds g1406.t11.CDS2 10676113 10676489
chr_3 g1406 g1406.t11 exon g1406.t11.exon5 10676554 10676689
chr_3 g1406 g1406.t11 cds g1406.t11.CDS3 10676554 10676689
chr_3 g1406 g1406.t11 exon g1406.t11.exon6 10679170 10679353
chr_3 g1406 g1406.t11 cds g1406.t11.CDS4 10679170 10679353
chr_3 g1406 g1406.t11 exon g1406.t11.exon7 10679411 10679475
chr_3 g1406 g1406.t11 cds g1406.t11.CDS5 10679411 10679443
chr_3 g1406 g1406.t11 exon g1406.t11.exon8 10686680 10687111
chr_3 g1406 g1406.t11 exon g1406.t11.exon9 10687197 10687218
chr_3 g1406 g1406.t11 TSS g1406.t11 10687224 10687224

Sequences

>g1406.t11 Gene=g1406 Length=1649
TTTATAATCGTTGCACTGTTCATTTTTTTATCATAAAAATTTTTATTTTCTGTGACGAAA
TATAAAAGAAAAAAAAATATTTTTACAAGTGCAGTTAACAACAACATGAAGTTGATTTCA
TTATTTTAAATTACCGCTCCTTCATATCGTAGGTAATTCTGCTTTTTATGACTCTGACTT
TATTTTTGCCAATAAGCATTGGGTCTAGATAGATCAGTATTGTGACAACTGTTGAGACGA
ACACTTCAGCAGTTTGTGCCAAAAAAATTTTAAAGCAAAAAATATTCTGAATTATTGAAA
AATTTAAAGAAAGAATATTTTTGTTAGAGGAAAATTGTGTGAAAAGTGAAATTAAAAGTG
ACTGAAAATAAATTGAAACTTGTGAAAAATTTAATTACTTTAAAGAATATTCTAAGACTC
TTCGTAATTTAATAAAATTTATAAATAAAAAAAGACAGGATGGTGCACAAAGTTAGCAAC
TCGACAATGGCGATAGCTGAAGTCGATAAAAATGAAAATATGATCAAGACAAAAAATTCG
CTAAATGTTAGCGATGAAAAGCCACGAGACTTTCCTGCTGAATTACCAGGACCAGAATAT
AAACTAGAATTAGTGTGGCGAAATATCATCATTTTTGCATTACTTCATATAGGCTATGTT
GCTGCATTTTTCATCGATAAATTTACAATTACTAAAGTCTTTGGCGTTGTATATGGAATT
TGTGGTGGCTTCGGAATAACAGCAGGTGCTCATCGACTTTGGGCTCATAATTCATACAAA
ACAAATACAGCCTACAAAATTATGCTTCTTATTTTCCAAACAATCGCATTTCAGAACAGT
GCATACGAATGGACAAGAGATCATCGTGTCCATCACAAATTTACTGATACAAATGCAGAT
CCACATAATGCACGTCGTGGTTTTTTCTTCTCACATATGGGCTGGTTGTTGTGCAAAAAA
CATCCGGATGTTAAAAAGTTTGGTGCAAGAGTTAGCATGGCTGATTTAGAAGCTGATCCA
ATCATTATGTTTCAACATAGACATTACCTTAAGCTCATGTTGTTCTTCAGTCTTATTTTG
CCAGTTTTTATTCCGTGGTATTTCTGGGGTGAAAGTTTTTGGGCTTCATTTTTAATTGCT
GGCGTTTTACGTTACATTACTTCACTTCATATTACATGGCTTATTAATTCTGCTGCACAT
ACTTATGGAATGAAACGAATATTTCACCATCTGACAGCTATCTTGTTGGATTTTTAGCTA
TGGGAGAAGGCTGGCATAATTATCATCACGTCTTTCCTTATGATTACAAAACTTCAGAAT
TAGGATTTTACGTGTTCAACTTAACGACAGCTTTTATTGATTTTTTCTCACTGTTTGGAT
GGACATATGACCTTAAAACAGTGTCACCTGAAATGATCAGACGTCGTGTGTTGAGAACAG
GTGATGGAAGTCATCCAGCATCAAAAGAAATGGATACAAAGGAATTATTGAATAAATTTA
TCCTAAGTCAAGCAATTGACAAAAATGGAAATATAATTCATAATGAAGAAGACTCAATAT
GGGGATTTAATGATGAAATGCTTCCAGCTGAAGATAGAAAATACATTAAAATTATTAACA
AACATTCAAATTTAAAGAAAAGAAATTAA

>g1406.t11 Gene=g1406 Length=256
MAIAEVDKNENMIKTKNSLNVSDEKPRDFPAELPGPEYKLELVWRNIIIFALLHIGYVAA
FFIDKFTITKVFGVVYGICGGFGITAGAHRLWAHNSYKTNTAYKIMLLIFQTIAFQNSAY
EWTRDHRVHHKFTDTNADPHNARRGFFFSHMGWLLCKKHPDVKKFGARVSMADLEADPII
MFQHRHYLKLMLFFSLILPVFIPWYFWGESFWASFLIAGVLRYITSLHITWLINSAAHTY
GMKRIFHHLTAILLDF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
24 g1406.t11 CDD cd03505 Delta9-FADS-like 71 244 4.86569E-40
2 g1406.t11 PANTHER PTHR11351 ACYL-COA DESATURASE 31 243 2.9E-83
3 g1406.t11 PANTHER PTHR11351:SF73 ACYL-COA DESATURASE 31 243 2.9E-83
6 g1406.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 44 64 2.9E-42
5 g1406.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 89 109 2.9E-42
7 g1406.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 126 155 2.9E-42
4 g1406.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 187 205 2.9E-42
8 g1406.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 220 241 2.9E-42
1 g1406.t11 Pfam PF00487 Fatty acid desaturase 71 243 1.4E-9
18 g1406.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 41 -
19 g1406.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 42 63 -
14 g1406.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 64 69 -
20 g1406.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 89 -
17 g1406.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 90 100 -
23 g1406.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 120 -
15 g1406.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 121 186 -
22 g1406.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 206 -
16 g1406.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 207 211 -
21 g1406.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 212 234 -
13 g1406.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 235 256 -
9 g1406.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 42 61 -
10 g1406.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -
12 g1406.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 190 207 -
11 g1406.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 211 233 -

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