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.t15 isoform g3030.t15 22212818 22214521
chr_3 g3030 g3030.t15 exon g3030.t15.exon1 22212818 22213552
chr_3 g3030 g3030.t15 cds g3030.t15.CDS1 22212827 22213120
chr_3 g3030 g3030.t15 TTS g3030.t15 22214491 22214491
chr_3 g3030 g3030.t15 exon g3030.t15.exon2 22214517 22214521
chr_3 g3030 g3030.t15 TSS g3030.t15 NA NA

Sequences

>g3030.t15 Gene=g3030 Length=740
ACTAAAAATATGAGCAAAGAAATGATTATAAACACTTGGAAAATATTACGTCAATTATTA
AATGTTCATGTAACGAAAAATTTAAAACTTTCGATTTTTATTCTATTTTACAGATATTTC
ATCCCTCTTAAAATTCTGTGTTGCTTCATTCTACCAACAATTGTGCCTGTCTATTTCTGG
GGTGAATCATGGTATATGGCTTTCATGTCACAAGCAGTTTTACGTTATCTCTTCAGTTTG
AACTTTACTTGGTTGGTTAATTCGGCTGCTCACATGTGGGGCTATAAACCTTACGACAGG
TAATCTCAACTCTTACCATGACAAAACTTTTAATGCATTTTCTTGTAATTAAATTATAGG
AGAATAAATCCAGTCGAGAATGTTGCAGTTGCTGTTGTTGCTATGGGCGAAGGATGGCAT
AATTATCATCATGTATTTCCTTGGGATTACAAAGCAGCTGAATTGGGAGATTATAAATTA
AACATTACAACTTTCTGGATAGACTTATTTGCTAAAATTGGTTGGGCTTATGACTTAAAA
CAACCTTCTGAAGACTTGGTGAGAAAGACAGTTCAAAAATATGGTGATGGTTGTCATTCT
GTGTGGGGACATGGACAATCAGAAAATATTCATGCACCTGTCGAGGTAACAAATTTAAAA
TTTGCCATTACAAAATTCTTTAATTGATTTGCATTTTCTTTAGGCAATTCCTGCACCAGG
CGAAGAAAACCTTGGTTGAC

>g3030.t15 Gene=g3030 Length=97
MSKEMIINTWKILRQLLNVHVTKNLKLSIFILFYRYFIPLKILCCFILPTIVPVYFWGES
WYMAFMSQAVLRYLFSLNFTWLVNSAAHMWGYKPYDR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g3030.t15 PANTHER PTHR11351 ACYL-COA DESATURASE 23 97 3.6E-25
2 g3030.t15 PANTHER PTHR11351:SF21 GH07782P 23 97 3.6E-25
4 g3030.t15 PRINTS PR00075 Fatty acid desaturase family 1 signature 37 55 1.3E-15
3 g3030.t15 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 91 1.3E-15
7 g3030.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 32 -
10 g3030.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 33 58 -
9 g3030.t15 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 59 69 -
11 g3030.t15 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 92 -
8 g3030.t15 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 93 97 -
5 g3030.t15 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 32 54 -
6 g3030.t15 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