Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t3 isoform g115.t3 996354 998969
chr_3 g115 g115.t3 exon g115.t3.exon1 996354 996694
chr_3 g115 g115.t3 TTS g115.t3 996357 996357
chr_3 g115 g115.t3 cds g115.t3.CDS1 996419 996694
chr_3 g115 g115.t3 exon g115.t3.exon2 996752 997010
chr_3 g115 g115.t3 cds g115.t3.CDS2 996752 997010
chr_3 g115 g115.t3 exon g115.t3.exon3 997069 997197
chr_3 g115 g115.t3 cds g115.t3.CDS3 997069 997197
chr_3 g115 g115.t3 exon g115.t3.exon4 997299 997360
chr_3 g115 g115.t3 cds g115.t3.CDS4 997299 997360
chr_3 g115 g115.t3 exon g115.t3.exon5 998503 998633
chr_3 g115 g115.t3 cds g115.t3.CDS5 998503 998633
chr_3 g115 g115.t3 exon g115.t3.exon6 998702 998969
chr_3 g115 g115.t3 cds g115.t3.CDS6 998702 998969
chr_3 g115 g115.t3 TSS g115.t3 NA NA

Sequences

>g115.t3 Gene=g115 Length=1190
ATGGCACCAGAAATAATGCAACCATCAAATCAGTCACAAAATGATAAAAATATTATACAT
CGTGTAAGCACAAATAAATTAGATGACAATCACAATTACAATCATGCAAATGGAAATGGA
AAAGTCGAAGCAGAAAATTCTCATGAAGTATTTAAGCCAAAAATACGATGGCCAGATTTT
ATAGTGCAATTATCATTACATATTGGATTTTTGTATGGTCTCTATTACTTAATCGCACTA
AAAGCAAAATTCTACACATACATTTGGTTCTTTGTCCTCATTTATGTAACAGGTTTAGGT
ATTACAGCCGGTGCGCATCGTCTATGGAGTCATCGTTCATACAAAGCAAAACTTCCATTG
CGTGTCCTTCTTTTGATATTTTTCACAATTGCTGGACAGAGAGACGCATATACATGGGCA
CACGATCATCGCATTCATCATAAATATTCTGAAACTGATTCAAAACGTGGATTCTTTTTT
GCTCATGTCGGCTGGTTATTTTTAACACCACATCCTGATGTCGTTGAAAAAAGAAAGTCA
ATTGATATGCGAGATTTGCAAGCAGATCCTTTACTTATGTGGCAGAAAAAATATTATCCA
CCATTATTTGCTCTTCTAGTCATATTTTTTCCTACAATCGTGCCTTATTATTTTTGGAAT
GAAGACTTGTGGATTTCTTTTTGGACAGCTTTTGTTTGTCGTTTTGTAACTGTCTTAAAT
ATTGCATTTTTTGTGAATAGCGTTGCACACATGTATGGAACAAAACCATATGATAAGAAA
ATTATGCCAGTAGAAAATTTAGCAGTTGCAATAACAGCAATGGGTGAAGGTTGGCACAAT
TATCATCATGTCTTTCCCTATGATTATAAAACTGGTGAATTTGGTGGATGGCAAGGATAT
AAATTTAATATCACAACAGCTCACATTGACTTTTTTGCTAAAATTGGCTGGGCTTATGAT
CGAAAATATGCAAGTGCTGAAATGATTGCAAGAAAAGTTGCAAAATCAGGCGATGGAAGT
CATTTTTTATCACATGAAGAAGCACACAAAACTTCAATTTATGGTTATGGTGATAAAGAT
CTTGAAATTGAAGATGCTAAAGCATTAGAAAATTTAAAAGAATGAAAATTCTTATGGAGG
CTGAGGCACTTAAATTAAATGAATGAAAAATAAATCATTTTTTAATTAAA

>g115.t3 Gene=g115 Length=374
MAPEIMQPSNQSQNDKNIIHRVSTNKLDDNHNYNHANGNGKVEAENSHEVFKPKIRWPDF
IVQLSLHIGFLYGLYYLIALKAKFYTYIWFFVLIYVTGLGITAGAHRLWSHRSYKAKLPL
RVLLLIFFTIAGQRDAYTWAHDHRIHHKYSETDSKRGFFFAHVGWLFLTPHPDVVEKRKS
IDMRDLQADPLLMWQKKYYPPLFALLVIFFPTIVPYYFWNEDLWISFWTAFVCRFVTVLN
IAFFVNSVAHMYGTKPYDKKIMPVENLAVAITAMGEGWHNYHHVFPYDYKTGEFGGWQGY
KFNITTAHIDFFAKIGWAYDRKYASAEMIARKVAKSGDGSHFLSHEEAHKTSIYGYGDKD
LEIEDAKALENLKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
27 g115.t3 CDD cd03505 Delta9-FADS-like 86 322 2.30916E-64
2 g115.t3 PANTHER PTHR11351 ACYL-COA DESATURASE 13 372 1.7E-174
3 g115.t3 PANTHER PTHR11351:SF61 RH14937P 13 372 1.7E-174
9 g115.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 57 77 7.4E-37
5 g115.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 106 126 7.4E-37
7 g115.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 143 172 7.4E-37
8 g115.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 199 217 7.4E-37
6 g115.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 232 253 7.4E-37
4 g115.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 275 289 7.4E-37
1 g115.t3 Pfam PF00487 Fatty acid desaturase 89 286 2.0E-12
14 g115.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 59 -
22 g115.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 78 -
19 g115.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 79 83 -
23 g115.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
17 g115.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 107 117 -
26 g115.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 118 137 -
20 g115.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 138 156 -
24 g115.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 157 175 -
16 g115.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 176 201 -
21 g115.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 202 219 -
18 g115.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 220 224 -
25 g115.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 225 245 -
15 g115.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 246 374 -
13 g115.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 79 -
12 g115.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
10 g115.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 202 219 -
11 g115.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 223 245 -

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

Pathway

  • This transcript belongs to the following pathways

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