Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g1402 g1402.t17 TTS g1402.t17 10653242 10653242
chr_3 g1402 g1402.t17 isoform g1402.t17 10654225 10656742
chr_3 g1402 g1402.t17 exon g1402.t17.exon1 10654225 10654521
chr_3 g1402 g1402.t17 cds g1402.t17.CDS1 10654226 10654521
chr_3 g1402 g1402.t17 exon g1402.t17.exon2 10654580 10654736
chr_3 g1402 g1402.t17 cds g1402.t17.CDS2 10654580 10654736
chr_3 g1402 g1402.t17 exon g1402.t17.exon3 10654809 10654905
chr_3 g1402 g1402.t17 cds g1402.t17.CDS3 10654809 10654892
chr_3 g1402 g1402.t17 exon g1402.t17.exon4 10656635 10656742
chr_3 g1402 g1402.t17 TSS g1402.t17 10656745 10656745

Sequences

>g1402.t17 Gene=g1402 Length=659
TTTATTTTGGACATCGTAGAGTGAAGACCTGAAAAAGGAAAAAAAAAGTTGTTCAAGAAA
AATTTTGTTTATTAAATTCTTTGAAGAAAAAAGTTGAAAATTATTGTGGAATTTTCATAT
CATGGTACCAGATCCATACGATGTAGTTTTCAAATCAACAGACGAAAATGGAAATGTGGT
CGCTAACAAATCTAACGGAGTCATTCGTGACTATCCGAGAAAAAATCCGTACGACACAAA
GCCGGGTGAGAAACCTTATGTGTTAGAAATTGTTTGGCGTAATGTTTTCATCATGCTTTA
TGCTCATTGTGCTGCTTTGAAAGTATTTTGGACACCTTGTCAACTCTCAACAATTTTAAT
TGCTGTTGGTTACGGGATTTTAGGCTCATGGGGAATTGCAGCAGGTGCTCATAGGCTTAT
GGCTCATAAATCATACAAAGCAAATAGAAACCTTCAACTTCTTTTAATATTTTTTCAAAC
TATTGCACTACAAAATTCTTGTATAGAATGGGTTAGAGATCATCGAGTTCATCATAAATA
TTCTGATACAAATGCAGATCCACATAATGCTAGTCGTGGATTCTTCTTTTCACATATGGG
CTGGTTATTATGTAAGAAACATCCCGATGTGAGGAAATATGGAAGTAGAATTAGTATGG

>g1402.t17 Gene=g1402 Length=179
MVPDPYDVVFKSTDENGNVVANKSNGVIRDYPRKNPYDTKPGEKPYVLEIVWRNVFIMLY
AHCAALKVFWTPCQLSTILIAVGYGILGSWGIAAGAHRLMAHKSYKANRNLQLLLIFFQT
IALQNSCIEWVRDHRVHHKYSDTNADPHNASRGFFFSHMGWLLCKKHPDVRKYGSRISM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g1402.t17 CDD cd03505 Delta9-FADS-like 77 164 5.23555E-40
1 g1402.t17 PANTHER PTHR11351 ACYL-COA DESATURASE 34 179 6.2E-51
2 g1402.t17 PANTHER PTHR11351:SF31 RE43130P 34 179 6.2E-51
5 g1402.t17 PRINTS PR00075 Fatty acid desaturase family 1 signature 52 72 2.0E-21
4 g1402.t17 PRINTS PR00075 Fatty acid desaturase family 1 signature 97 117 2.0E-21
3 g1402.t17 PRINTS PR00075 Fatty acid desaturase family 1 signature 134 163 2.0E-21
8 g1402.t17 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 49 -
10 g1402.t17 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 70 -
9 g1402.t17 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 71 75 -
11 g1402.t17 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 96 -
7 g1402.t17 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 97 179 -
6 g1402.t17 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -

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

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