Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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_3 g3031 g3031.t21 isoform g3031.t21 22216839 22217549
chr_3 g3031 g3031.t21 exon g3031.t21.exon1 22216839 22217139
chr_3 g3031 g3031.t21 cds g3031.t21.CDS1 22216905 22217139
chr_3 g3031 g3031.t21 exon g3031.t21.exon2 22217199 22217379
chr_3 g3031 g3031.t21 cds g3031.t21.CDS2 22217199 22217379
chr_3 g3031 g3031.t21 exon g3031.t21.exon3 22217443 22217549
chr_3 g3031 g3031.t21 cds g3031.t21.CDS3 22217443 22217548
chr_3 g3031 g3031.t21 TTS g3031.t21 22218236 22218236
chr_3 g3031 g3031.t21 TSS g3031.t21 NA NA

Sequences

>g3031.t21 Gene=g3031 Length=589
GATACACTTTTTTTGCGCAGGCAACTTTATAGTTTATTAAAGTTTGATATTCACGATTAA
CAAAAAATGGCTCCGCGTGAAGTCGTTAAAACTTCAGAGATTTCCGTTAGTGGTGTATTG
GATGAAAATGACATCGAAACAATTGATGGAGGATTGAAACAGCCATCACAAGGATATGCT
AGACGCCGCAATTTAAAACTTGTTTGGCGCAATATTATTCTTTTTGCGTATCTTCATCTT
GCTGCAGTATATGGTTTATGGCTTATGTTAACTTCTGCAAAATGGACTACAGGAATTTTC
GCAATGATGTTGTATTCTATGAGCGGTCTTGGAATCACAGCTGGTGCTCATCGTCTATGG
GCTCATCGTGCATACAAAGCTAAATGGCCATTACGCATTATTCTTACTATTTTCAATACA
ATTGCTTTCCAAGATTGCGCAATCCATTGGGCACGCGATCATCGAGTACATCATAAATAC
AGTGAAACTGACGCTGATCCACATAATGCAACACGCGGTTTCTTCTTCTCTCATATCGGC
TGGCTCTTGTGTCGTAAACATCCTGATGTTATTGCTGCCGGCAAGAAAT

>g3031.t21 Gene=g3031 Length=174
MAPREVVKTSEISVSGVLDENDIETIDGGLKQPSQGYARRRNLKLVWRNIILFAYLHLAA
VYGLWLMLTSAKWTTGIFAMMLYSMSGLGITAGAHRLWAHRAYKAKWPLRIILTIFNTIA
FQDCAIHWARDHRVHHKYSETDADPHNATRGFFFSHIGWLLCRKHPDVIAAGKK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g3031.t21 CDD cd03505 Delta9-FADS-like 72 162 1.8026E-43
1 g3031.t21 PANTHER PTHR11351 ACYL-COA DESATURASE 13 173 4.5E-85
2 g3031.t21 PANTHER PTHR11351:SF91 DESATURASE 1, ISOFORM A-RELATED 13 173 4.5E-85
5 g3031.t21 PRINTS PR00075 Fatty acid desaturase family 1 signature 47 67 6.8E-44
4 g3031.t21 PRINTS PR00075 Fatty acid desaturase family 1 signature 72 94 6.8E-44
6 g3031.t21 PRINTS PR00075 Fatty acid desaturase family 1 signature 95 115 6.8E-44
3 g3031.t21 PRINTS PR00075 Fatty acid desaturase family 1 signature 132 161 6.8E-44
9 g3031.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 44 -
13 g3031.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 45 65 -
11 g3031.t21 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 66 76 -
12 g3031.t21 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 98 -
10 g3031.t21 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 99 174 -
8 g3031.t21 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 67 -
7 g3031.t21 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.

Raw TPM values