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.t5 TTS g1402.t5 10653242 10653242
chr_3 g1402 g1402.t5 isoform g1402.t5 10653331 10654892
chr_3 g1402 g1402.t5 exon g1402.t5.exon1 10653331 10653398
chr_3 g1402 g1402.t5 cds g1402.t5.CDS1 10653331 10653398
chr_3 g1402 g1402.t5 exon g1402.t5.exon2 10653456 10653773
chr_3 g1402 g1402.t5 cds g1402.t5.CDS2 10653456 10653773
chr_3 g1402 g1402.t5 exon g1402.t5.exon3 10653838 10653890
chr_3 g1402 g1402.t5 cds g1402.t5.CDS3 10653838 10653890
chr_3 g1402 g1402.t5 exon g1402.t5.exon4 10653950 10654132
chr_3 g1402 g1402.t5 cds g1402.t5.CDS4 10653950 10654132
chr_3 g1402 g1402.t5 exon g1402.t5.exon5 10654185 10654521
chr_3 g1402 g1402.t5 cds g1402.t5.CDS5 10654185 10654521
chr_3 g1402 g1402.t5 exon g1402.t5.exon6 10654580 10654892
chr_3 g1402 g1402.t5 cds g1402.t5.CDS6 10654580 10654649
chr_3 g1402 g1402.t5 TSS g1402.t5 NA NA

Sequences

>g1402.t5 Gene=g1402 Length=1272
ATGGTACCAGATCCATACGATGTAGTTTTCAAATCAACAGACGAAAATGGAAATGTGGTC
GCTAACAAATCTAACGGAGTCATTGTAAGTTTTATTTTAAGTCTTTTGCATAATTTATTC
AAAAGTTCATTAACATTTTTTGCATCTCCATCATAGCGTGACTATCCGAGAAAAAATCCG
TACGACACAAAGCCGGGTGAGAAACCTTATGTGTTAGAAATTGTTTGGCGTAATGTTTTC
ATCATGCTTTATGCTCATTGTGCTGCTTTGAAAGTATTTTGGACACCTTGTCAACTCTCA
ACAATTTTAATTGCTGTTGGTTACGGGATTTTAGGCTCATGGGGAATTGCAGCAGGTGCT
CATAGGCTTATGGCTCATAAATCATACAAAGCAAATAGAAACCTTCAACTTCTTTTAATA
TTTTTTCAAACTATTGCACTACAAAATTCTTGTATAGAATGGGTTAGAGATCATCGAGTT
CATCATAAATATTCTGATACAAATGCAGATCCACATAATGCTAGTCGTGGATTCTTCTTT
TCACATATGGGCTGGTTATTATGTAAGAAACATCCCGATGTGAGGAAATATGGAAGTAGA
ATTAGTATGGCTGATTTAGAATGTGATCCAGTTCTTCGATTTCAACATAAATATTATGTT
TGGCTAGTGCTTCTTATTTCACTCTCAATTCCAATTTTTATATCAACTTATATTTTTGGT
GATACATTTTCGGCTGCTTATCATATGAACATTTTTAGAATTGTCTTAGCATGGCATATA
ACTTGGAGTATAAATTCTGTTTCACATATTTGGGGAAATCGACCCTTTGAAAAAGATATT
TTGCCAACTGATACTTTCATAATTGGTTTTCTTGCTTTTGGAGAAGGATGGCATAATTTT
CATCATGTTTATCCGTGGGACTATAAAGTTTCTGAATTGCCCAATTATTATTGCAATTTT
ACAATTCCATTTATTGATTTCTTCGCATGGCTTGGTTGGGCGACAGATTTAAAAATGGCA
TCAGATGAGATGATCAGAAAAAGAATAATGAAAAGTGGTGATGGAACTCATAGATATTCA
ATAGAGGAAGCAAAAAAGAAAAAGACAGCTAAAGAATTGTTAGATTTATTCAATAACAAA
GTCTTACAAAAAAGCAATCCACATGAACTTGAAGGCGATTTTGCTGACACATATTGGGGA
TATGGTGACAATGATATACCAGAAGAAGAAATAAAAGATATCACAATATTAAAACCAACA
AAGGGAAAATAA

>g1402.t5 Gene=g1402 Length=342
MLYAHCAALKVFWTPCQLSTILIAVGYGILGSWGIAAGAHRLMAHKSYKANRNLQLLLIF
FQTIALQNSCIEWVRDHRVHHKYSDTNADPHNASRGFFFSHMGWLLCKKHPDVRKYGSRI
SMADLECDPVLRFQHKYYVWLVLLISLSIPIFISTYIFGDTFSAAYHMNIFRIVLAWHIT
WSINSVSHIWGNRPFEKDILPTDTFIIGFLAFGEGWHNFHHVYPWDYKVSELPNYYCNFT
IPFIDFFAWLGWATDLKMASDEMIRKRIMKSGDGTHRYSIEEAKKKKTAKELLDLFNNKV
LQKSNPHELEGDFADTYWGYGDNDIPEEEIKDITILKPTKGK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g1402.t5 CDD cd03505 Delta9-FADS-like 20 257 3.47579E-67
2 g1402.t5 PANTHER PTHR11351 ACYL-COA DESATURASE 7 278 6.5E-105
3 g1402.t5 PANTHER PTHR11351:SF91 DESATURASE 1, ISOFORM A-RELATED 7 278 6.5E-105
9 g1402.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 17 39 1.3E-43
7 g1402.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 40 60 1.3E-43
6 g1402.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 77 106 1.3E-43
8 g1402.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 138 156 1.3E-43
4 g1402.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 170 191 1.3E-43
5 g1402.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 213 227 1.3E-43
1 g1402.t5 Pfam PF00487 Fatty acid desaturase 23 226 1.4E-11
17 g1402.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
22 g1402.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 39 -
13 g1402.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 40 136 -
18 g1402.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 137 158 -
15 g1402.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 159 169 -
21 g1402.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 170 187 -
14 g1402.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 188 198 -
20 g1402.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 199 219 -
16 g1402.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 220 238 -
19 g1402.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 239 259 -
12 g1402.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 260 342 -
10 g1402.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
11 g1402.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 137 159 -

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