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.t36 isoform g16389.t36 9313332 9317789
chr_4 g16389 g16389.t36 exon g16389.t36.exon1 9313332 9313563
chr_4 g16389 g16389.t36 exon g16389.t36.exon2 9313644 9313817
chr_4 g16389 g16389.t36 cds g16389.t36.CDS1 9313658 9313817
chr_4 g16389 g16389.t36 exon g16389.t36.exon3 9314409 9314539
chr_4 g16389 g16389.t36 cds g16389.t36.CDS2 9314409 9314539
chr_4 g16389 g16389.t36 exon g16389.t36.exon4 9315379 9315455
chr_4 g16389 g16389.t36 cds g16389.t36.CDS3 9315379 9315455
chr_4 g16389 g16389.t36 exon g16389.t36.exon5 9316625 9316650
chr_4 g16389 g16389.t36 cds g16389.t36.CDS4 9316625 9316650
chr_4 g16389 g16389.t36 exon g16389.t36.exon6 9317099 9317438
chr_4 g16389 g16389.t36 cds g16389.t36.CDS5 9317099 9317438
chr_4 g16389 g16389.t36 exon g16389.t36.exon7 9317501 9317789
chr_4 g16389 g16389.t36 cds g16389.t36.CDS6 9317501 9317789
chr_4 g16389 g16389.t36 TTS g16389.t36 9317882 9317882
chr_4 g16389 g16389.t36 TSS g16389.t36 NA NA

Sequences

>g16389.t36 Gene=g16389 Length=1269
ATGTTATTTTGCAAACCGGCATCGACGCCACTGACTTTATATGTTCCAATGTGTGTGCAA
AAAAAAGTTTAAATTATTTTTTTCCGATTTTTTAGAACGTTCAGTTGACGTGCATCAGTC
TCGGGATATTGAAGTAATTTTTAGTTCTTCCCGTTTTTTAATTGTCGATTTTTTCTTTCG
TGCTTTGTGAATTTTTTTAAATTTAATTAATACAAAAAAGGAAGAAAAAAATTACATCAA
AATGTGATGAAAACGGAGAGTGATGAAAATTTAAAGTCTAATGCACCCTTTCGTGCTGAA
ATTCAATGGCGTAATGTTGCCGTCAACTTGTTTATTCATCTTGGTTTCTTCGTTGGACTC
TATTATATAATTACATTCAAATTGCAACTAAAAACTTTCATTTACTTTTTCTTCCTGACA
TGCTTATGCAATTTGGGTGTCACGATCGGCGTTCACAGATTATGGAGTCACAGAAGTTTC
AAATGCACTCGTCCAATTAAGCTTCTTCTTACCTTTTTTTACACAATGGCTGGTCAATCA
TCGATTTTCCATTGGGTTCAAATTCATCGAGTTCATCATAAATTTTCTGAAACTTTAAAG
GATCCATTAGATGTTAATCGTGGATTCTTTTTTGCACATGTCGGTTGGTACTGTCTTTCA
TACCATCCAGAATGTGAAACTGAGATGAAGCGTATTGATATGGATGATATAAAGGCTGAT
AAAGACCTGATGTTCCAGTACAAGTACTATTCACATCTTTTCACACTTCTCAATTTCCTT
TCCGTTCTTATTCCATGCTATTTTTGGGGCGAATCATTCAAAATTGCTTTTTGGGTTTGC
TTTGTAACACGTTTTGCCATCAACTTTACACAATTAAATTTCACTAATAGTGCAAATCAT
TTCATTGGAAAACGTCCTTATGATAAAACTCAATCAGCTACTGACAACATTGCTTGCACT
ATTTTCTCATTTGGAGAAGGGTATCATAATTATCATCATGTCTTTCCTTATGATTACCGT
ACTGGTGAATTTGGTGACATTGGTCACTACAATCTCTCAGCTGTCATCATTGATTTCTGG
TACAAAATGGGATGGGTTTGGGATCGTAAACTTGTTTCACAAGACATGATCAATCGAAGA
GTCTTAAGAACTGGCGATGGAAGTCATTGGTTGTCACATGATGAAGCCCATAAAAATTCA
ATCTATGGTTATGGTGATAAAGATATTGATGAAGCTGATCAGAAAGAATTAGAAAGAATG
ATTGGCTAA

>g16389.t36 Gene=g16389 Length=340
MKTESDENLKSNAPFRAEIQWRNVAVNLFIHLGFFVGLYYIITFKLQLKTFIYFFFLTCL
CNLGVTIGVHRLWSHRSFKCTRPIKLLLTFFYTMAGQSSIFHWVQIHRVHHKFSETLKDP
LDVNRGFFFAHVGWYCLSYHPECETEMKRIDMDDIKADKDLMFQYKYYSHLFTLLNFLSV
LIPCYFWGESFKIAFWVCFVTRFAINFTQLNFTNSANHFIGKRPYDKTQSATDNIACTIF
SFGEGYHNYHHVFPYDYRTGEFGDIGHYNLSAVIIDFWYKMGWVWDRKLVSQDMINRRVL
RTGDGSHWLSHDEAHKNSIYGYGDKDIDEADQKELERMIG

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g16389.t36 CDD cd03505 Delta9-FADS-like 47 288 4.43909E-56
2 g16389.t36 PANTHER PTHR11351 ACYL-COA DESATURASE 6 338 1.9E-112
3 g16389.t36 PANTHER PTHR11351:SF61 RH14937P 6 338 1.9E-112
5 g16389.t36 PRINTS PR00075 Fatty acid desaturase family 1 signature 21 41 2.0E-37
9 g16389.t36 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 90 2.0E-37
8 g16389.t36 PRINTS PR00075 Fatty acid desaturase family 1 signature 107 136 2.0E-37
7 g16389.t36 PRINTS PR00075 Fatty acid desaturase family 1 signature 167 185 2.0E-37
4 g16389.t36 PRINTS PR00075 Fatty acid desaturase family 1 signature 200 221 2.0E-37
6 g16389.t36 PRINTS PR00075 Fatty acid desaturase family 1 signature 243 257 2.0E-37
1 g16389.t36 Pfam PF00487 Fatty acid desaturase 54 272 2.5E-19
14 g16389.t36 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
23 g16389.t36 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 42 -
17 g16389.t36 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 43 53 -
24 g16389.t36 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 54 74 -
16 g16389.t36 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 75 85 -
21 g16389.t36 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 104 -
18 g16389.t36 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 105 166 -
22 g16389.t36 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 186 -
15 g16389.t36 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 187 192 -
20 g16389.t36 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 193 212 -
19 g16389.t36 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 213 340 -
13 g16389.t36 ProSitePatterns PS00476 Fatty acid desaturases family 1 signature. 243 257 -
11 g16389.t36 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 23 42 -
12 g16389.t36 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 52 74 -
10 g16389.t36 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