Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Delta(9)-fatty-acid desaturase fat-6.

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 g3030 g3030.t16 isoform g3030.t16 22212818 22214521
chr_3 g3030 g3030.t16 exon g3030.t16.exon1 22212818 22213550
chr_3 g3030 g3030.t16 cds g3030.t16.CDS1 22212827 22213120
chr_3 g3030 g3030.t16 TTS g3030.t16 22214491 22214491
chr_3 g3030 g3030.t16 exon g3030.t16.exon2 22214515 22214521
chr_3 g3030 g3030.t16 TSS g3030.t16 NA NA

Sequences

>g3030.t16 Gene=g3030 Length=740
ACTAAAAATATGAGCAAAGAAATGATTATAAACACTTGGAAAATATTACGTCAATTATTA
AATGTTCATGTAACGAAAAATTTAAAACTTTCGATTTTTATTCTATTTTACAGATATTTC
ATCCCTCTTAAAATTCTGTGTTGCTTCATTCTACCAACAATTGTGCCTGTCTATTTCTGG
GGTGAATCATGGTATATGGCTTTCATGTCACAAGCAGTTTTACGTTATCTCTTCAGTTTG
AACTTTACTTGGTTGGTTAATTCGGCTGCTCACATGTGGGGCTATAAACCTTACGACAGG
TAATCTCAACTCTTACCATGACAAAACTTTTAATGCATTTTCTTGTAATTAAATTATAGG
AGAATAAATCCAGTCGAGAATGTTGCAGTTGCTGTTGTTGCTATGGGCGAAGGATGGCAT
AATTATCATCATGTATTTCCTTGGGATTACAAAGCAGCTGAATTGGGAGATTATAAATTA
AACATTACAACTTTCTGGATAGACTTATTTGCTAAAATTGGTTGGGCTTATGACTTAAAA
CAACCTTCTGAAGACTTGGTGAGAAAGACAGTTCAAAAATATGGTGATGGTTGTCATTCT
GTGTGGGGACATGGACAATCAGAAAATATTCATGCACCTGTCGAGGTAACAAATTTAAAA
TTTGCCATTACAAAATTCTTTAATTGATTTGCATTTTCTTTAGGCAATTCCTGCACCAGG
CGAAGAAAACCTTACTTGAC

>g3030.t16 Gene=g3030 Length=97
MSKEMIINTWKILRQLLNVHVTKNLKLSIFILFYRYFIPLKILCCFILPTIVPVYFWGES
WYMAFMSQAVLRYLFSLNFTWLVNSAAHMWGYKPYDR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g3030.t16 PANTHER PTHR11351 ACYL-COA DESATURASE 23 97 3.6E-25
2 g3030.t16 PANTHER PTHR11351:SF21 GH07782P 23 97 3.6E-25
4 g3030.t16 PRINTS PR00075 Fatty acid desaturase family 1 signature 37 55 1.3E-15
3 g3030.t16 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 91 1.3E-15
7 g3030.t16 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 32 -
10 g3030.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 33 58 -
9 g3030.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 59 69 -
11 g3030.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 92 -
8 g3030.t16 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 93 97 -
5 g3030.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
6 g3030.t16 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 69 91 -

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