Gene loci information

Transcript annotation

  • This transcript has been annotated as 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 g1402 g1402.t11 TTS g1402.t11 10653242 10653242
chr_3 g1402 g1402.t11 isoform g1402.t11 10653331 10656742
chr_3 g1402 g1402.t11 exon g1402.t11.exon1 10653331 10653398
chr_3 g1402 g1402.t11 cds g1402.t11.CDS1 10653331 10653398
chr_3 g1402 g1402.t11 exon g1402.t11.exon2 10653456 10653773
chr_3 g1402 g1402.t11 cds g1402.t11.CDS2 10653456 10653773
chr_3 g1402 g1402.t11 exon g1402.t11.exon3 10653838 10653890
chr_3 g1402 g1402.t11 cds g1402.t11.CDS3 10653838 10653890
chr_3 g1402 g1402.t11 exon g1402.t11.exon4 10653950 10654132
chr_3 g1402 g1402.t11 cds g1402.t11.CDS4 10653950 10654132
chr_3 g1402 g1402.t11 exon g1402.t11.exon5 10654185 10654521
chr_3 g1402 g1402.t11 cds g1402.t11.CDS5 10654185 10654521
chr_3 g1402 g1402.t11 exon g1402.t11.exon6 10654580 10654736
chr_3 g1402 g1402.t11 cds g1402.t11.CDS6 10654580 10654736
chr_3 g1402 g1402.t11 exon g1402.t11.exon7 10654809 10654905
chr_3 g1402 g1402.t11 cds g1402.t11.CDS7 10654809 10654892
chr_3 g1402 g1402.t11 exon g1402.t11.exon8 10656638 10656742
chr_3 g1402 g1402.t11 TSS g1402.t11 10656745 10656745

Sequences

>g1402.t11 Gene=g1402 Length=1318
TTTATTTTGGACATCGTAGAGTGAAGACCTGAAAAAGGAAAAAAAAAGTTGTTCAAGAAA
AATTTTGTTTATTAAATTCTTTGAAGAAAAAAGTTGAAAATTATTGAATTTTCATATCAT
GGTACCAGATCCATACGATGTAGTTTTCAAATCAACAGACGAAAATGGAAATGTGGTCGC
TAACAAATCTAACGGAGTCATTCGTGACTATCCGAGAAAAAATCCGTACGACACAAAGCC
GGGTGAGAAACCTTATGTGTTAGAAATTGTTTGGCGTAATGTTTTCATCATGCTTTATGC
TCATTGTGCTGCTTTGAAAGTATTTTGGACACCTTGTCAACTCTCAACAATTTTAATTGC
TGTTGGTTACGGGATTTTAGGCTCATGGGGAATTGCAGCAGGTGCTCATAGGCTTATGGC
TCATAAATCATACAAAGCAAATAGAAACCTTCAACTTCTTTTAATATTTTTTCAAACTAT
TGCACTACAAAATTCTTGTATAGAATGGGTTAGAGATCATCGAGTTCATCATAAATATTC
TGATACAAATGCAGATCCACATAATGCTAGTCGTGGATTCTTCTTTTCACATATGGGCTG
GTTATTATGTAAGAAACATCCCGATGTGAGGAAATATGGAAGTAGAATTAGTATGGCTGA
TTTAGAATGTGATCCAGTTCTTCGATTTCAACATAAATATTATGTTTGGCTAGTGCTTCT
TATTTCACTCTCAATTCCAATTTTTATATCAACTTATATTTTTGGTGATACATTTTCGGC
TGCTTATCATATGAACATTTTTAGAATTGTCTTAGCATGGCATATAACTTGGAGTATAAA
TTCTGTTTCACATATTTGGGGAAATCGACCCTTTGAAAAAGATATTTTGCCAACTGATAC
TTTCATAATTGGTTTTCTTGCTTTTGGAGAAGGATGGCATAATTTTCATCATGTTTATCC
GTGGGACTATAAAGTTTCTGAATTGCCCAATTATTATTGCAATTTTACAATTCCATTTAT
TGATTTCTTCGCATGGCTTGGTTGGGCGACAGATTTAAAAATGGCATCAGATGAGATGAT
CAGAAAAAGAATAATGAAAAGTGGTGATGGAACTCATAGATATTCAATAGAGGAAGCAAA
AAAGAAAAAGACAGCTAAAGAATTGTTAGATTTATTCAATAACAAAGTCTTACAAAAAAG
CAATCCACATGAACTTGAAGGCGATTTTGCTGACACATATTGGGGATATGGTGACAATGA
TATACCAGAAGAAGAAATAAAAGATATCACAATATTAAAACCAACAAAGGGAAAATAA

>g1402.t11 Gene=g1402 Length=399
MVPDPYDVVFKSTDENGNVVANKSNGVIRDYPRKNPYDTKPGEKPYVLEIVWRNVFIMLY
AHCAALKVFWTPCQLSTILIAVGYGILGSWGIAAGAHRLMAHKSYKANRNLQLLLIFFQT
IALQNSCIEWVRDHRVHHKYSDTNADPHNASRGFFFSHMGWLLCKKHPDVRKYGSRISMA
DLECDPVLRFQHKYYVWLVLLISLSIPIFISTYIFGDTFSAAYHMNIFRIVLAWHITWSI
NSVSHIWGNRPFEKDILPTDTFIIGFLAFGEGWHNFHHVYPWDYKVSELPNYYCNFTIPF
IDFFAWLGWATDLKMASDEMIRKRIMKSGDGTHRYSIEEAKKKKTAKELLDLFNNKVLQK
SNPHELEGDFADTYWGYGDNDIPEEEIKDITILKPTKGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g1402.t11 CDD cd03505 Delta9-FADS-like 77 314 2.98825E-69
2 g1402.t11 PANTHER PTHR11351 ACYL-COA DESATURASE 35 345 4.5E-111
3 g1402.t11 PANTHER PTHR11351:SF31 RE43130P 35 345 4.5E-111
7 g1402.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 52 72 3.5E-41
6 g1402.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 97 117 3.5E-41
5 g1402.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 134 163 3.5E-41
8 g1402.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 195 213 3.5E-41
4 g1402.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 227 248 3.5E-41
9 g1402.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 270 284 3.5E-41
1 g1402.t11 Pfam PF00487 Fatty acid desaturase 80 283 2.8E-11
15 g1402.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 49 -
19 g1402.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 70 -
18 g1402.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 71 75 -
21 g1402.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 76 96 -
12 g1402.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 97 193 -
24 g1402.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 194 215 -
17 g1402.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 216 226 -
20 g1402.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 227 244 -
14 g1402.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 245 255 -
22 g1402.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 256 276 -
16 g1402.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 277 295 -
23 g1402.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 296 316 -
13 g1402.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 317 399 -
10 g1402.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
11 g1402.t11 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
GO:0006629 lipid metabolic process BP

KEGG

Orthology

Pathway

This gene does not belong to any 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