Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA desaturase 2.

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.t43 TSS g16389.t43 9313433 9313433
chr_4 g16389 g16389.t43 isoform g16389.t43 9313627 9317789
chr_4 g16389 g16389.t43 exon g16389.t43.exon1 9313627 9313817
chr_4 g16389 g16389.t43 cds g16389.t43.CDS1 9313658 9313817
chr_4 g16389 g16389.t43 exon g16389.t43.exon2 9314409 9314539
chr_4 g16389 g16389.t43 cds g16389.t43.CDS2 9314409 9314539
chr_4 g16389 g16389.t43 exon g16389.t43.exon3 9315379 9315455
chr_4 g16389 g16389.t43 cds g16389.t43.CDS3 9315379 9315455
chr_4 g16389 g16389.t43 exon g16389.t43.exon4 9317079 9317438
chr_4 g16389 g16389.t43 cds g16389.t43.CDS4 9317079 9317438
chr_4 g16389 g16389.t43 exon g16389.t43.exon5 9317501 9317789
chr_4 g16389 g16389.t43 cds g16389.t43.CDS5 9317501 9317789
chr_4 g16389 g16389.t43 TTS g16389.t43 9317882 9317882

Sequences

>g16389.t43 Gene=g16389 Length=1048
GGCGCCTGACGCAAAAGTACATCAAAATGTGATGAAAACGGAGAGTGATGAAAATTTAAA
GTCTAATGCACCCTTTCGTGCTGAAATTCAATGGCGTAATGTTGCCGTCAACTTGTTTAT
TCATCTTGGTTTCTTCGTTGGACTCTATTATATAATTACATTCAAATTGCAACTAAAAAC
TTTCATTTACTTTTTCTTCCTGACATGCTTATGCAATTTGGGTGTCACGATCGGCGTTCA
CAGATTATGGAGTCACAGAAGTTTCAAATGCACTCGTCCAATTAAGCTTCTTCTTACCTT
TTTTTACACAATGGCTGGTCAATCATCGATTTTCCATTGGGTTCAAATTCATCGAGTTCA
TCATAAATTTTCTGAAACTTTAAAGGATCCATTAGATGTTAAATTTTTTTTTATTTTAGT
CGGTTGGTACTGTCTTTCATACCATCCAGAATGTGAAACTGAGATGAAGCGTATTGATAT
GGATGATATAAAGGCTGATAAAGACCTGATGTTCCAGTACAAGTACTATTCACATCTTTT
CACACTTCTCAATTTCCTTTCCGTTCTTATTCCATGCTATTTTTGGGGCGAATCATTCAA
AATTGCTTTTTGGGTTTGCTTTGTAACACGTTTTGCCATCAACTTTACACAATTAAATTT
CACTAATAGTGCAAATCATTTCATTGGAAAACGTCCTTATGATAAAACTCAATCAGCTAC
TGACAACATTGCTTGCACTATTTTCTCATTTGGAGAAGGGTATCATAATTATCATCATGT
CTTTCCTTATGATTACCGTACTGGTGAATTTGGTGACATTGGTCACTACAATCTCTCAGC
TGTCATCATTGATTTCTGGTACAAAATGGGATGGGTTTGGGATCGTAAACTTGTTTCACA
AGACATGATCAATCGAAGAGTCTTAAGAACTGGCGATGGAAGTCATTGGTTGTCACATGA
TGAAGCCCATAAAAATTCAATCTATGGTTATGGTGATAAAGATATTGATGAAGCTGATCA
GAAAGAATTAGAAAGAATGATTGGCTAA

>g16389.t43 Gene=g16389 Length=338
MKTESDENLKSNAPFRAEIQWRNVAVNLFIHLGFFVGLYYIITFKLQLKTFIYFFFLTCL
CNLGVTIGVHRLWSHRSFKCTRPIKLLLTFFYTMAGQSSIFHWVQIHRVHHKFSETLKDP
LDVKFFFILVGWYCLSYHPECETEMKRIDMDDIKADKDLMFQYKYYSHLFTLLNFLSVLI
PCYFWGESFKIAFWVCFVTRFAINFTQLNFTNSANHFIGKRPYDKTQSATDNIACTIFSF
GEGYHNYHHVFPYDYRTGEFGDIGHYNLSAVIIDFWYKMGWVWDRKLVSQDMINRRVLRT
GDGSHWLSHDEAHKNSIYGYGDKDIDEADQKELERMIG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
29 g16389.t43 CDD cd03505 Delta9-FADS-like 47 286 3.21372E-50
2 g16389.t43 PANTHER PTHR11351 ACYL-COA DESATURASE 6 336 1.1E-106
3 g16389.t43 PANTHER PTHR11351:SF61 RH14937P 6 336 1.1E-106
6 g16389.t43 PRINTS PR00075 Fatty acid desaturase family 1 signature 21 41 2.3E-28
9 g16389.t43 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 90 2.3E-28
8 g16389.t43 PRINTS PR00075 Fatty acid desaturase family 1 signature 107 136 2.3E-28
4 g16389.t43 PRINTS PR00075 Fatty acid desaturase family 1 signature 165 183 2.3E-28
5 g16389.t43 PRINTS PR00075 Fatty acid desaturase family 1 signature 198 219 2.3E-28
7 g16389.t43 PRINTS PR00075 Fatty acid desaturase family 1 signature 241 255 2.3E-28
1 g16389.t43 Pfam PF00487 Fatty acid desaturase 54 270 5.0E-18
19 g16389.t43 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 23 -
25 g16389.t43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 24 44 -
21 g16389.t43 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 45 49 -
24 g16389.t43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
17 g16389.t43 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 73 83 -
23 g16389.t43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 103 -
22 g16389.t43 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 104 122 -
27 g16389.t43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 123 140 -
16 g16389.t43 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 141 164 -
28 g16389.t43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 165 186 -
20 g16389.t43 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 187 191 -
26 g16389.t43 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 192 211 -
18 g16389.t43 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 212 338 -
15 g16389.t43 ProSitePatterns PS00476 Fatty acid desaturases family 1 signature. 241 255 -
11 g16389.t43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 24 46 -
13 g16389.t43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 51 73 -
10 g16389.t43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 86 105 -
14 g16389.t43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 120 137 -
12 g16389.t43 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 165 187 -

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. There were no conditions that were differentially expressed