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_4 g15057 g15057.t13 TTS g15057.t13 3734473 3734473
chr_4 g15057 g15057.t13 isoform g15057.t13 3734658 3738227
chr_4 g15057 g15057.t13 exon g15057.t13.exon1 3734658 3734722
chr_4 g15057 g15057.t13 cds g15057.t13.CDS1 3734658 3734722
chr_4 g15057 g15057.t13 exon g15057.t13.exon2 3734780 3734846
chr_4 g15057 g15057.t13 cds g15057.t13.CDS2 3734780 3734846
chr_4 g15057 g15057.t13 exon g15057.t13.exon3 3734946 3735043
chr_4 g15057 g15057.t13 cds g15057.t13.CDS3 3734946 3735043
chr_4 g15057 g15057.t13 exon g15057.t13.exon4 3735209 3735781
chr_4 g15057 g15057.t13 cds g15057.t13.CDS4 3735209 3735548
chr_4 g15057 g15057.t13 exon g15057.t13.exon5 3738105 3738227
chr_4 g15057 g15057.t13 TSS g15057.t13 3738227 3738227

Sequences

>g15057.t13 Gene=g15057 Length=926
AGTTTCGTTTGAGACTTTCGTGTGAAAAGACATAAAAATAATTGAAGTGAAAATTAAATT
TTTTTTTAGAAAAAGAAGAAAAAAGTTATAAAGTACTAAGAGTTTTCTTTTTGCATCTTT
AAGATTACATCTACGGTTGGGTTGGAGCATTTGGAATTTCTGCTGGTGCACATCGTTTAT
GGTGTCATCGAAGTTACAAAGCAAATAAGAAACTTGAATTGCTTCTACTTTATCTAAACA
CAATAGCAGTTCAAAATTCAGTCATTGAATGGGTTCGTGATCATCGAGTTCATCACAAAC
ATAGCGATACTGATGCAGATCCTCATAATTCTAAACGTGGATTTTTCTTTTCTCATATGG
GCTGGTTATTATGCAAAAAACATCCTGATGTGAAGAAATTCGGTTCAAAAATTGATATGA
GCGATTTAATGAATAATCCATTGCTGAGATTTCAACATAAATATTATATACCACTTATTT
TGTTGATCAGTCAAATTATTCCAATTGCTTGCACAATTTATCTTTTTAACACGACAGTCT
ACACTTCATTTTGTTTTAGTATGAACAGATATTTCATGTCATTACATCGAACATGGTTTA
CAAACTCGTTTGCTCATATTGGAACTTGGAAACCATATGACAAAAACATTGCATCAAGTG
ATTCGAAATTTTTTGGAACAATTTGCTTTGGTGAAGGCTGGCATAATTTCCACCATGTCT
TTCCATGGGATTACAAAGTTTCAGAACTTCCACTCTATCGCTACAACTTCACAATCGCTT
TTATTGACTTCTTTGAAGCTGCTAAAAACAAAATTGAATTTGATATTGCGCAAAATGTGT
CAAGTTTATGTTGGGGATTGGGCGACAATGATATGACTGAAGATGAAATGAATGGAATAA
AAACACTACACCCAAAAAGTCAATAA

>g15057.t13 Gene=g15057 Length=189
MGWLLCKKHPDVKKFGSKIDMSDLMNNPLLRFQHKYYIPLILLISQIIPIACTIYLFNTT
VYTSFCFSMNRYFMSLHRTWFTNSFAHIGTWKPYDKNIASSDSKFFGTICFGEGWHNFHH
VFPWDYKVSELPLYRYNFTIAFIDFFEAAKNKIEFDIAQNVSSLCWGLGDNDMTEDEMNG
IKTLHPKSQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g15057.t13 PANTHER PTHR11351 ACYL-COA DESATURASE 1 148 2.9E-46
3 g15057.t13 PANTHER PTHR11351:SF31 RE43130P 1 148 2.9E-46
6 g15057.t13 PRINTS PR00075 Fatty acid desaturase family 1 signature 37 55 3.1E-13
5 g15057.t13 PRINTS PR00075 Fatty acid desaturase family 1 signature 69 90 3.1E-13
4 g15057.t13 PRINTS PR00075 Fatty acid desaturase family 1 signature 112 126 3.1E-13
1 g15057.t13 Pfam PF00487 Fatty acid desaturase 34 135 5.1E-7
8 g15057.t13 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 35 -
10 g15057.t13 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 57 -
9 g15057.t13 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 58 189 -
7 g15057.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 36 58 -

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