Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Acyl-CoA 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 g115 g115.t13 TTS g115.t13 996357 996357
chr_3 g115 g115.t13 isoform g115.t13 996995 998969
chr_3 g115 g115.t13 exon g115.t13.exon1 996995 997010
chr_3 g115 g115.t13 cds g115.t13.CDS1 996995 997010
chr_3 g115 g115.t13 exon g115.t13.exon2 997069 997197
chr_3 g115 g115.t13 cds g115.t13.CDS2 997069 997197
chr_3 g115 g115.t13 exon g115.t13.exon3 997284 997360
chr_3 g115 g115.t13 cds g115.t13.CDS3 997284 997360
chr_3 g115 g115.t13 exon g115.t13.exon4 998503 998633
chr_3 g115 g115.t13 cds g115.t13.CDS4 998503 998633
chr_3 g115 g115.t13 exon g115.t13.exon5 998702 998969
chr_3 g115 g115.t13 cds g115.t13.CDS5 998702 998969
chr_3 g115 g115.t13 TSS g115.t13 NA NA

Sequences

>g115.t13 Gene=g115 Length=621
ATGGCACCAGAAATAATGCAACCATCAAATCAGTCACAAAATGATAAAAATATTATACAT
CGTGTAAGCACAAATAAATTAGATGACAATCACAATTACAATCATGCAAATGGAAATGGA
AAAGTCGAAGCAGAAAATTCTCATGAAGTATTTAAGCCAAAAATACGATGGCCAGATTTT
ATAGTGCAATTATCATTACATATTGGATTTTTGTATGGTCTCTATTACTTAATCGCACTA
AAAGCAAAATTCTACACATACATTTGGTTCTTTGTCCTCATTTATGTAACAGGTTTAGGT
ATTACAGCCGGTGCGCATCGTCTATGGAGTCATCGTTCATACAAAGCAAAACTTCCATTG
CGTGTCCTTCTTTTGATATTTTTCACAATTGCTGGACAGAGAGACGCATATACATGGGCA
CACGATCATCGCATTCATCATAAATATTCTGAAACTGATTCTGATCCACATAATGCAAAA
CGTGGATTCTTTTTTGCTCATGTCGGCTGGTTATTTTTAACACCACATCCTGATGTCGTT
GAAAAAAGAAAGTCAATTGATATGCGAGATTTGCAAGCAGATCCTTTACTTATGTGGCAG
AAAAAATATTATCCACCATTA

>g115.t13 Gene=g115 Length=207
MAPEIMQPSNQSQNDKNIIHRVSTNKLDDNHNYNHANGNGKVEAENSHEVFKPKIRWPDF
IVQLSLHIGFLYGLYYLIALKAKFYTYIWFFVLIYVTGLGITAGAHRLWSHRSYKAKLPL
RVLLLIFFTIAGQRDAYTWAHDHRIHHKYSETDSDPHNAKRGFFFAHVGWLFLTPHPDVV
EKRKSIDMRDLQADPLLMWQKKYYPPL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g115.t13 CDD cd03505 Delta9-FADS-like 86 171 1.40993E-41
2 g115.t13 PANTHER PTHR11351 ACYL-COA DESATURASE 13 207 1.2E-92
3 g115.t13 PANTHER PTHR11351:SF61 RH14937P 13 207 1.2E-92
6 g115.t13 PRINTS PR00075 Fatty acid desaturase family 1 signature 57 77 2.1E-28
4 g115.t13 PRINTS PR00075 Fatty acid desaturase family 1 signature 106 126 2.1E-28
5 g115.t13 PRINTS PR00075 Fatty acid desaturase family 1 signature 143 172 2.1E-28
1 g115.t13 Pfam PF00487 Fatty acid desaturase 89 200 4.8E-7
9 g115.t13 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 59 -
13 g115.t13 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 78 -
11 g115.t13 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 79 83 -
12 g115.t13 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 105 -
10 g115.t13 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 106 207 -
8 g115.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 80 -
7 g115.t13 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -

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.

Raw TPM values