Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA 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_3 g1406 g1406.t9 TTS g1406.t9 10674847 10674847
chr_3 g1406 g1406.t9 isoform g1406.t9 10675030 10686910
chr_3 g1406 g1406.t9 exon g1406.t9.exon1 10675030 10675301
chr_3 g1406 g1406.t9 exon g1406.t9.exon2 10675362 10675469
chr_3 g1406 g1406.t9 cds g1406.t9.CDS1 10675469 10675469
chr_3 g1406 g1406.t9 exon g1406.t9.exon3 10675979 10676035
chr_3 g1406 g1406.t9 cds g1406.t9.CDS2 10675979 10676035
chr_3 g1406 g1406.t9 exon g1406.t9.exon4 10676103 10676489
chr_3 g1406 g1406.t9 cds g1406.t9.CDS3 10676103 10676489
chr_3 g1406 g1406.t9 exon g1406.t9.exon5 10676554 10676689
chr_3 g1406 g1406.t9 cds g1406.t9.CDS4 10676554 10676689
chr_3 g1406 g1406.t9 exon g1406.t9.exon6 10679170 10679353
chr_3 g1406 g1406.t9 cds g1406.t9.CDS5 10679170 10679353
chr_3 g1406 g1406.t9 exon g1406.t9.exon7 10679411 10679475
chr_3 g1406 g1406.t9 cds g1406.t9.CDS6 10679411 10679443
chr_3 g1406 g1406.t9 exon g1406.t9.exon8 10686680 10686910
chr_3 g1406 g1406.t9 TSS g1406.t9 10687224 10687224

Sequences

>g1406.t9 Gene=g1406 Length=1440
GACAACTGTTGAGACGAACACTTCAGCAGTTTGTGCCAAAAAAATTTTAAAGCAAAAAAT
ATTCTGAATTATTGAAAAATTTAAAGAAAGAATATTTTTGTTAGAGGAAAATTGTGTGAA
AAGTGAAATTAAAAGTGACTGAAAATAAATTGAAACTTGTGAAAAATTTAATTACTTTAA
AGAATATTCTAAGACTCTTCGTAATTTAATAAAATTTATAAATAAAAAAAGACAGGATGG
TGCACAAAGTTAGCAACTCGACAATGGCGATAGCTGAAGTCGATAAAAATGAAAATATGA
TCAAGACAAAAAATTCGCTAAATGTTAGCGATGAAAAGCCACGAGACTTTCCTGCTGAAT
TACCAGGACCAGAATATAAACTAGAATTAGTGTGGCGAAATATCATCATTTTTGCATTAC
TTCATATAGGCTATGTTGCTGCATTTTTCATCGATAAATTTACAATTACTAAAGTCTTTG
GCGTTGTATATGGAATTTGTGGTGGCTTCGGAATAACAGCAGGTGCTCATCGACTTTGGG
CTCATAATTCATACAAAACAAATACAGCCTACAAAATTATGCTTCTTATTTTCCAAACAA
TCGCATTTCAGAACAGTGCATACGAATGGACAAGAGATCATCGTGTCCATCACAAATTTA
CTGATACAAATGCAGATCCACATAATGCACGTCGTGGTTTTTTCTTCTCACATATGGGCT
GGTTGTTGTGCAAAAAACATCCGGATGTTAAAAAGTTTGGTGCAAGAGTTAGCATGGCTG
ATTTAGAAGCTGATCCAATCATTATGTTTCAACATAGACATTACCTTAAGCTCATGTTGT
TCTTCAGTCTTATTTTGCCAGTTTTTATTCCGTGGTATTTCTGGGGTGAAAGTTTTTGGG
CTTCATTTTTAATTGCTGGCGTTTTACGTTACATTACTTCACTTCATATTACATGGCTTA
TTAATTCTGCTGCACATACTTATGGAATGAAACCTTTTGATAAGAATATTTCACCATCTG
ACAGCTATCTTGTTGGATTTTTAGCTATGGGAGAAGGTTAGCTGGCATAATTATCATCAC
GTCTTTCCTTATGATTACAAAACTTCAGAATTAGGATTTTACGTGTTCAACTTAACGACA
GCTTTTATTGATTTTTTCTCACTGTTTGGATGGACATATGACCTTAAAACAGTGTCACCT
GAAATGATCAGACGTCGTGTGTTGAGAACAGGTGATGGAAGTCATCCAGCATCAAAAGAA
ATGGATACAAAGGAATTATTGAATAAATTTATCCTAAGTCAAGCAATTGACAAAAATGGA
AATATAATTCATAATGAAGAAGACTCAATATGGGGATTTAATGATGAAATGCTTCCAGCT
GAAGATAGAAAATACATTAAAATTATTAACAAACATTCAAATTTAAAGAAAAGAAATTAA

>g1406.t9 Gene=g1406 Length=265
MAIAEVDKNENMIKTKNSLNVSDEKPRDFPAELPGPEYKLELVWRNIIIFALLHIGYVAA
FFIDKFTITKVFGVVYGICGGFGITAGAHRLWAHNSYKTNTAYKIMLLIFQTIAFQNSAY
EWTRDHRVHHKFTDTNADPHNARRGFFFSHMGWLLCKKHPDVKKFGARVSMADLEADPII
MFQHRHYLKLMLFFSLILPVFIPWYFWGESFWASFLIAGVLRYITSLHITWLINSAAHTY
GMKPFDKNISPSDSYLVGFLAMGEG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
24 g1406.t9 CDD cd03505 Delta9-FADS-like 71 265 9.25704E-52
2 g1406.t9 PANTHER PTHR11351 ACYL-COA DESATURASE 31 265 5.9E-93
3 g1406.t9 PANTHER PTHR11351:SF73 ACYL-COA DESATURASE 31 265 5.9E-93
6 g1406.t9 PRINTS PR00075 Fatty acid desaturase family 1 signature 44 64 3.3E-42
5 g1406.t9 PRINTS PR00075 Fatty acid desaturase family 1 signature 89 109 3.3E-42
7 g1406.t9 PRINTS PR00075 Fatty acid desaturase family 1 signature 126 155 3.3E-42
4 g1406.t9 PRINTS PR00075 Fatty acid desaturase family 1 signature 187 205 3.3E-42
8 g1406.t9 PRINTS PR00075 Fatty acid desaturase family 1 signature 220 241 3.3E-42
1 g1406.t9 Pfam PF00487 Fatty acid desaturase 71 255 4.5E-11
18 g1406.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 41 -
19 g1406.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 42 63 -
14 g1406.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 64 69 -
21 g1406.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 89 -
17 g1406.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 90 100 -
23 g1406.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 120 -
15 g1406.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 121 186 -
22 g1406.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 206 -
16 g1406.t9 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 207 211 -
20 g1406.t9 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 212 233 -
13 g1406.t9 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 234 265 -
9 g1406.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 42 61 -
10 g1406.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -
12 g1406.t9 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 190 207 -
11 g1406.t9 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