Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Acyl-CoA desaturase 2.

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 g16389 g16389.t5 isoform g16389.t5 9313332 9317079
chr_4 g16389 g16389.t5 exon g16389.t5.exon1 9313332 9313563
chr_4 g16389 g16389.t5 cds g16389.t5.CDS1 9313562 9313563
chr_4 g16389 g16389.t5 exon g16389.t5.exon2 9313627 9313817
chr_4 g16389 g16389.t5 cds g16389.t5.CDS2 9313627 9313817
chr_4 g16389 g16389.t5 exon g16389.t5.exon3 9314409 9314539
chr_4 g16389 g16389.t5 cds g16389.t5.CDS3 9314409 9314539
chr_4 g16389 g16389.t5 exon g16389.t5.exon4 9315379 9315455
chr_4 g16389 g16389.t5 cds g16389.t5.CDS4 9315379 9315455
chr_4 g16389 g16389.t5 exon g16389.t5.exon5 9316625 9317079
chr_4 g16389 g16389.t5 cds g16389.t5.CDS5 9316625 9316661
chr_4 g16389 g16389.t5 TTS g16389.t5 9317882 9317882
chr_4 g16389 g16389.t5 TSS g16389.t5 NA NA

Sequences

>g16389.t5 Gene=g16389 Length=1086
ATGTTATTTTGCAAACCGGCATCGACGCCACTGACTTTATATGTTCCAATGTGTGTGCAA
AAAAAAGTTTAAATTATTTTTTTCCGATTTTTTAGAACGTTCAGTTGACGTGCATCAGTC
TCGGGATATTGAAGTAATTTTTAGTTCTTCCCGTTTTTTAATTGTCGATTTTTTCTTTCG
TGCTTTGTGAATTTTTTTAAATTTAATTAATACAAAAAAGGAAGAAAAAAATGGCGCCTG
ACGCAAAAGTACATCAAAATGTGATGAAAACGGAGAGTGATGAAAATTTAAAGTCTAATG
CACCCTTTCGTGCTGAAATTCAATGGCGTAATGTTGCCGTCAACTTGTTTATTCATCTTG
GTTTCTTCGTTGGACTCTATTATATAATTACATTCAAATTGCAACTAAAAACTTTCATTT
ACTTTTTCTTCCTGACATGCTTATGCAATTTGGGTGTCACGATCGGCGTTCACAGATTAT
GGAGTCACAGAAGTTTCAAATGCACTCGTCCAATTAAGCTTCTTCTTACCTTTTTTTACA
CAATGGCTGGTCAATCATCGATTTTCCATTGGGTTCAAATTCATCGAGTTCATCATAAAT
TTTCTGAAACTTTAAAGGATCCATTAGATGTTAATCGTGGATTCTTTTTTGCACATGGTA
AGTTATGACGTTTTTACTCACACACAAAATTTATTTTTAAAAATTTCGTGGTCATAAGAT
AGGAAGAAATACCCACACGTGTAGAATTTTTTTTATTGACTTTGAAAGTCTTTTAAATTC
TAGCAGATTTTTTTAAAAAAGAAAGAAAGAAAAATTCAAAGTCCAATAAAAGAGCAAAAA
ACTCAGCTGATTAAGAGAATAAAAAAATTAGTACGTGACTGCAAATAAGAAGAAAAAAGA
AGGCAAAAACACAATTCGAGTCACGTGTTATCAGTAAAAAATTTAATACAATTATGGCTT
TTGTGATTGTATAGTTGAAAGTAATGAATTGCGGTCAATGAATTGAAACACAATAAAAAT
TAGTAAATAAATGTGACATGCAAAAAATAATTGAAAATTTTCTTAAGTGAATTTAATTAA
ATTTAT

>g16389.t5 Gene=g16389 Length=145
MAPDAKVHQNVMKTESDENLKSNAPFRAEIQWRNVAVNLFIHLGFFVGLYYIITFKLQLK
TFIYFFFLTCLCNLGVTIGVHRLWSHRSFKCTRPIKLLLTFFYTMAGQSSIFHWVQIHRV
HHKFSETLKDPLDVNRGFFFAHGKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g16389.t5 PANTHER PTHR11351 ACYL-COA DESATURASE 9 142 9.4E-38
3 g16389.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 32 52 2.2E-20
4 g16389.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 81 101 2.2E-20
2 g16389.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 118 145 2.2E-20
9 g16389.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 34 -
13 g16389.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 35 55 -
10 g16389.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 56 60 -
14 g16389.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 61 84 -
8 g16389.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 85 95 -
12 g16389.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 96 115 -
11 g16389.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 116 145 -
6 g16389.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 34 53 -
7 g16389.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 63 85 -
5 g16389.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 98 117 -

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.

Raw TPM values