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 g1632 g1632.t4 isoform g1632.t4 12234578 12236410
chr_3 g1632 g1632.t4 exon g1632.t4.exon1 12234578 12234661
chr_3 g1632 g1632.t4 TSS g1632.t4 12234582 12234582
chr_3 g1632 g1632.t4 exon g1632.t4.exon2 12234902 12235071
chr_3 g1632 g1632.t4 cds g1632.t4.CDS1 12234912 12235071
chr_3 g1632 g1632.t4 exon g1632.t4.exon3 12235135 12235265
chr_3 g1632 g1632.t4 cds g1632.t4.CDS2 12235135 12235265
chr_3 g1632 g1632.t4 exon g1632.t4.exon4 12235338 12235543
chr_3 g1632 g1632.t4 cds g1632.t4.CDS3 12235338 12235543
chr_3 g1632 g1632.t4 exon g1632.t4.exon5 12235598 12235822
chr_3 g1632 g1632.t4 cds g1632.t4.CDS4 12235598 12235822
chr_3 g1632 g1632.t4 exon g1632.t4.exon6 12236134 12236410
chr_3 g1632 g1632.t4 cds g1632.t4.CDS5 12236134 12236410
chr_3 g1632 g1632.t4 TTS g1632.t4 12236500 12236500

Sequences

>g1632.t4 Gene=g1632 Length=1093
CAGTCATTCGGTTTTTAACTTCTGTGTAGAGAAGTTCAAGGAATTTTTTCAATAAAGAAA
TTTGAGTAGAAATTTTAAAAGAAATTAATAAATTATGACAGAAACAACAACAGAAACTTC
AAAACCAAGATCAGCTGATTACAAAAGAGAAGCATCATGGCCCAGTGTACTTTTCTTCAT
TCATTTGAATATTTTAGGACTTTATGGAATCGTCATTTTATTCACTCATACAAAATTGAT
CACAATTTTATTCTCATTTATTTTGACAATTATGGGAATGTATGGAACGACAGTTGGTGC
ACACAGACTCTGGACTCATCAAACATTTAAAGCAAATACTTCACTTAGATTTATTCTTAT
GCTATGTCAAACTATGGCTGGTCAGGGTTCAATTTATGATTTTGTTCGAACTCATCGTTT
GCATCATCAAACTTTTAAAACTGCTGATGATCCATTTTATAGTGACAAAGATTTTCTCTC
AGCTCAAGTTTTTGCTCATATCAGAAAATTAAGTACTAGACAAGAAAAATTACTTGAAAC
TGTGAATATGAAAGATATTGAAGAAGATGGAATTGTCATGTTCCAAAAAAGATTTTATTG
GATTCTTTATTTGATTCTTTTTGTTCTGCTGCCAATCAATGCACCATTAGAATATTGGGA
TGATACTGTGCAAGCTGCAATCTTTGTTGCTTTTTCATTGAGATATTTAATTGTCATCAA
TTTCGCTTGGCTCGTTAATTCAGCTCATTTCATTTGGGCTTTGGATAAAAATCACAAACA
ATCTGACTCAAATATGGTCTTTATTGTCACTAAAAGTTACTGGCCTCAATATCACTATTT
AATTCCATACGACTATCAAACAGGAGAATTTGGCAATTATGGAGAAGGAACATCAACAAG
TTTAATTAGAATTTTTGCAGCAATGGGGTGGGCAACAGAGCTTAAAACAGTGACATCAGA
TGCAGTTAGAAAAGGACTCGCAATGGCTGTTGATACTGGAAGAGAAATTGTTGATTGCAT
AAAAGAGGCAAATGATGAAGAATTGCTAAAATTGCCACCTGATCATTATTTGAAAAGAGA
AAATTTGAGTTAA

>g1632.t4 Gene=g1632 Length=332
MTETTTETSKPRSADYKREASWPSVLFFIHLNILGLYGIVILFTHTKLITILFSFILTIM
GMYGTTVGAHRLWTHQTFKANTSLRFILMLCQTMAGQGSIYDFVRTHRLHHQTFKTADDP
FYSDKDFLSAQVFAHIRKLSTRQEKLLETVNMKDIEEDGIVMFQKRFYWILYLILFVLLP
INAPLEYWDDTVQAAIFVAFSLRYLIVINFAWLVNSAHFIWALDKNHKQSDSNMVFIVTK
SYWPQYHYLIPYDYQTGEFGNYGEGTSTSLIRIFAAMGWATELKTVTSDAVRKGLAMAVD
TGREIVDCIKEANDEELLKLPPDHYLKRENLS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g1632.t4 CDD cd03505 Delta9-FADS-like 47 284 1.03619E-43
1 g1632.t4 PANTHER PTHR11351 ACYL-COA DESATURASE 4 320 5.4E-158
2 g1632.t4 PANTHER PTHR11351:SF26 AGAP003050-PA 4 320 5.4E-158
4 g1632.t4 PRINTS PR00075 Fatty acid desaturase family 1 signature 22 42 3.6E-25
5 g1632.t4 PRINTS PR00075 Fatty acid desaturase family 1 signature 47 69 3.6E-25
7 g1632.t4 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 90 3.6E-25
6 g1632.t4 PRINTS PR00075 Fatty acid desaturase family 1 signature 107 136 3.6E-25
3 g1632.t4 PRINTS PR00075 Fatty acid desaturase family 1 signature 201 222 3.6E-25
15 g1632.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
21 g1632.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 43 -
12 g1632.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 44 47 -
20 g1632.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 48 66 -
17 g1632.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 67 85 -
19 g1632.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 104 -
13 g1632.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 166 -
22 g1632.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 185 -
16 g1632.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 186 190 -
18 g1632.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 191 214 -
14 g1632.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 215 332 -
10 g1632.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
9 g1632.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 48 70 -
8 g1632.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 167 184 -
11 g1632.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 194 216 -

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

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. There were no conditions that were differentially expressed