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_1 g10642 g10642.t1 isoform g10642.t1 11032685 11033702
chr_1 g10642 g10642.t1 exon g10642.t1.exon1 11032685 11032734
chr_1 g10642 g10642.t1 cds g10642.t1.CDS1 11032685 11032734
chr_1 g10642 g10642.t1 exon g10642.t1.exon2 11032815 11033078
chr_1 g10642 g10642.t1 cds g10642.t1.CDS2 11032815 11033078
chr_1 g10642 g10642.t1 exon g10642.t1.exon3 11033200 11033405
chr_1 g10642 g10642.t1 cds g10642.t1.CDS3 11033200 11033405
chr_1 g10642 g10642.t1 exon g10642.t1.exon4 11033485 11033702
chr_1 g10642 g10642.t1 cds g10642.t1.CDS4 11033485 11033702
chr_1 g10642 g10642.t1 TSS g10642.t1 NA NA
chr_1 g10642 g10642.t1 TTS g10642.t1 NA NA

Sequences

>g10642.t1 Gene=g10642 Length=738
ATGGCAGCTCAAGAACCGATTCTTCATTGGGCTCGTGATCATCGTGTTCATCATAAATTT
ACAGACACTGATGCTGATCCATATAATTCAAGGAGAGGTTTCTTTTTCTCACATATGGGC
TGGTTGCTTGTTAAAAAACATCCTGAAGTTATCAGACAAGGTCAAAAAATTGATATGAGT
GATCTTCGTGATGATCCAATGTTAAAATTCCAAAAAAGGAATATTGGTGTTCCAATTTTA
TTAGGACTTTGGTGTGGTGAAGATTTTAAGACACTTTGGTATGGTAATATTTATCGTTAC
TTGATTGTCTTGCATTGTGTTTGGTGTGTCAATTCTGTTGCTCATATTTGGGGCACAAAG
CCTTATGACAAAGATATATCACCGACTGATTCAAGATTTGTTGGATTTGTTGCTATTGGA
GAAGGCTGGCATAATTATCACCACGTGTTTCCTTGGGATTACAAAACCGCAGAACTTCCT
GGTTACCGTTGGAACTTGTCAACGTCTGTCATTGATTTCTTTGCATGGCTAGGCTGGGCT
ACAGAATTGAAAACTGTTCCTGATGAAATTATTAGAAAACGAGTTTTAAGAACGGGTGAT
GGCAGTCATCCATATTCAATTGAGATGCAAAATAACAACAACAATAATTTTGACAAGTTA
AGGGATACTGAGCATTTTTGGGGTTTTGGTGATCAAGAAATGACTACAGAAGATATGAAA
TACGTAAAAGTTTTATGA

>g10642.t1 Gene=g10642 Length=245
MAAQEPILHWARDHRVHHKFTDTDADPYNSRRGFFFSHMGWLLVKKHPEVIRQGQKIDMS
DLRDDPMLKFQKRNIGVPILLGLWCGEDFKTLWYGNIYRYLIVLHCVWCVNSVAHIWGTK
PYDKDISPTDSRFVGFVAIGEGWHNYHHVFPWDYKTAELPGYRWNLSTSVIDFFAWLGWA
TELKTVPDEIIRKRVLRTGDGSHPYSIEMQNNNNNNFDKLRDTEHFWGFGDQEMTTEDMK
YVKVL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g10642.t1 CDD cd03505 Delta9-FADS-like 1 184 0
2 g10642.t1 PANTHER PTHR11351 ACYL-COA DESATURASE 1 211 0
3 g10642.t1 PANTHER PTHR11351:SF31 RE43130P 1 211 0
4 g10642.t1 PRINTS PR00075 Fatty acid desaturase family 1 signature 14 43 0
5 g10642.t1 PRINTS PR00075 Fatty acid desaturase family 1 signature 97 118 0
6 g10642.t1 PRINTS PR00075 Fatty acid desaturase family 1 signature 140 154 0
1 g10642.t1 Pfam PF00487 Fatty acid desaturase 6 153 0

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