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_4 g16389 g16389.t7 isoform g16389.t7 9313332 9317433
chr_4 g16389 g16389.t7 exon g16389.t7.exon1 9313332 9313817
chr_4 g16389 g16389.t7 cds g16389.t7.CDS1 9313658 9313817
chr_4 g16389 g16389.t7 exon g16389.t7.exon2 9314409 9314539
chr_4 g16389 g16389.t7 cds g16389.t7.CDS2 9314409 9314539
chr_4 g16389 g16389.t7 exon g16389.t7.exon3 9315379 9315455
chr_4 g16389 g16389.t7 cds g16389.t7.CDS3 9315379 9315455
chr_4 g16389 g16389.t7 exon g16389.t7.exon4 9316625 9316650
chr_4 g16389 g16389.t7 cds g16389.t7.CDS4 9316625 9316650
chr_4 g16389 g16389.t7 exon g16389.t7.exon5 9317099 9317433
chr_4 g16389 g16389.t7 cds g16389.t7.CDS5 9317099 9317433
chr_4 g16389 g16389.t7 TTS g16389.t7 9317882 9317882
chr_4 g16389 g16389.t7 TSS g16389.t7 NA NA

Sequences

>g16389.t7 Gene=g16389 Length=1055
ATGTTATTTTGCAAACCGGCATCGACGCCACTGACTTTATATGTTCCAATGTGTGTGCAA
AAAAAAGTTTAAATTATTTTTTTCCGATTTTTTAGAACGTTCAGTTGACGTGCATCAGTC
TCGGGATATTGAAGTAATTTTTAGTTCTTCCCGTTTTTTAATTGTCGATTTTTTCTTTCG
TGCTTTGTGAATTTTTTTAAATTTAATTAATACAAAAAAGGAAGAAAAAAATGTAAAGTA
GAAAAAAATTCTAAAAAAAATTTCTTGCATAACTAAAAAAAAAAATTTAATTTAGGGCGC
CTGACGCAAAAGTACATCAAAATGTGATGAAAACGGAGAGTGATGAAAATTTAAAGTCTA
ATGCACCCTTTCGTGCTGAAATTCAATGGCGTAATGTTGCCGTCAACTTGTTTATTCATC
TTGGTTTCTTCGTTGGACTCTATTATATAATTACATTCAAATTGCAACTAAAAACTTTCA
TTTACTTTTTCTTCCTGACATGCTTATGCAATTTGGGTGTCACGATCGGCGTTCACAGAT
TATGGAGTCACAGAAGTTTCAAATGCACTCGTCCAATTAAGCTTCTTCTTACCTTTTTTT
ACACAATGGCTGGTCAATCATCGATTTTCCATTGGGTTCAAATTCATCGAGTTCATCATA
AATTTTCTGAAACTTTAAAGGATCCATTAGATGTTAATCGTGGATTCTTTTTTGCACATG
TCGGTTGGTACTGTCTTTCATACCATCCAGAATGTGAAACTGAGATGAAGCGTATTGATA
TGGATGATATAAAGGCTGATAAAGACCTGATGTTCCAGTACAAGTACTATTCACATCTTT
TCACACTTCTCAATTTCCTTTCCGTTCTTATTCCATGCTATTTTTGGGGCGAATCATTCA
AAATTGCTTTTTGGGTTTGCTTTGTAACACGTTTTGCCATCAACTTTACACAATTAAATT
TCACTAATAGTGCAAATCATTTCATTGGAAAACGTCCTTATGATAAAACTCAATCAGCTA
CTGACAACATTGCTTGCACTATTTTCTCATTTGGA

>g16389.t7 Gene=g16389 Length=243
MKTESDENLKSNAPFRAEIQWRNVAVNLFIHLGFFVGLYYIITFKLQLKTFIYFFFLTCL
CNLGVTIGVHRLWSHRSFKCTRPIKLLLTFFYTMAGQSSIFHWVQIHRVHHKFSETLKDP
LDVNRGFFFAHVGWYCLSYHPECETEMKRIDMDDIKADKDLMFQYKYYSHLFTLLNFLSV
LIPCYFWGESFKIAFWVCFVTRFAINFTQLNFTNSANHFIGKRPYDKTQSATDNIACTIF
SFG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
24 g16389.t7 CDD cd03505 Delta9-FADS-like 47 243 7.95955E-36
2 g16389.t7 PANTHER PTHR11351 ACYL-COA DESATURASE 6 243 1.3E-71
3 g16389.t7 PANTHER PTHR11351:SF61 RH14937P 6 243 1.3E-71
5 g16389.t7 PRINTS PR00075 Fatty acid desaturase family 1 signature 21 41 1.9E-28
8 g16389.t7 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 90 1.9E-28
7 g16389.t7 PRINTS PR00075 Fatty acid desaturase family 1 signature 107 136 1.9E-28
6 g16389.t7 PRINTS PR00075 Fatty acid desaturase family 1 signature 167 185 1.9E-28
4 g16389.t7 PRINTS PR00075 Fatty acid desaturase family 1 signature 200 221 1.9E-28
1 g16389.t7 Pfam PF00487 Fatty acid desaturase 54 242 3.1E-11
18 g16389.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 23 -
19 g16389.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 42 -
13 g16389.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 43 50 -
21 g16389.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 72 -
16 g16389.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 73 83 -
23 g16389.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 104 -
14 g16389.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 166 -
22 g16389.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 188 -
17 g16389.t7 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 189 193 -
20 g16389.t7 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 194 213 -
15 g16389.t7 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 214 243 -
10 g16389.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 23 42 -
12 g16389.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 52 74 -
11 g16389.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 106 -
9 g16389.t7 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 167 189 -

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