Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Acyl-CoA desaturase 4.

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 g1632 g1632.t3 isoform g1632.t3 12234578 12235830
chr_3 g1632 g1632.t3 exon g1632.t3.exon1 12234578 12234661
chr_3 g1632 g1632.t3 TSS g1632.t3 12234582 12234582
chr_3 g1632 g1632.t3 exon g1632.t3.exon2 12234902 12235071
chr_3 g1632 g1632.t3 cds g1632.t3.CDS1 12234912 12235071
chr_3 g1632 g1632.t3 exon g1632.t3.exon3 12235135 12235265
chr_3 g1632 g1632.t3 cds g1632.t3.CDS2 12235135 12235265
chr_3 g1632 g1632.t3 exon g1632.t3.exon4 12235338 12235543
chr_3 g1632 g1632.t3 cds g1632.t3.CDS3 12235338 12235543
chr_3 g1632 g1632.t3 exon g1632.t3.exon5 12235598 12235830
chr_3 g1632 g1632.t3 cds g1632.t3.CDS4 12235598 12235826
chr_3 g1632 g1632.t3 TTS g1632.t3 12236500 12236500

Sequences

>g1632.t3 Gene=g1632 Length=824
CAGTCATTCGGTTTTTAACTTCTGTGTAGAGAAGTTCAAGGAATTTTTTCAATAAAGAAA
TTTGAGTAGAAATTTTAAAAGAAATTAATAAATTATGACAGAAACAACAACAGAAACTTC
AAAACCAAGATCAGCTGATTACAAAAGAGAAGCATCATGGCCCAGTGTACTTTTCTTCAT
TCATTTGAATATTTTAGGACTTTATGGAATCGTCATTTTATTCACTCATACAAAATTGAT
CACAATTTTATTCTCATTTATTTTGACAATTATGGGAATGTATGGAACGACAGTTGGTGC
ACACAGACTCTGGACTCATCAAACATTTAAAGCAAATACTTCACTTAGATTTATTCTTAT
GCTATGTCAAACTATGGCTGGTCAGGGTTCAATTTATGATTTTGTTCGAACTCATCGTTT
GCATCATCAAACTTTTAAAACTGCTGATGATCCATTTTATAGTGACAAAGATTTTCTCTC
AGCTCAAGTTTTTGCTCATATCAGAAAATTAAGTACTAGACAAGAAAAATTACTTGAAAC
TGTGAATATGAAAGATATTGAAGAAGATGGAATTGTCATGTTCCAAAAAAGATTTTATTG
GATTCTTTATTTGATTCTTTTTGTTCTGCTGCCAATCAATGCACCATTAGAATATTGGGA
TGATACTGTGCAAGCTGCAATCTTTGTTGCTTTTTCATTGAGATATTTAATTGTCATCAA
TTTCGCTTGGCTCGTTAATTCAGCTCATTTCATTTGGGCTTTGGATAAAAATCACAAACA
ATCTGACTCAAATATGGTCTTTATTGTCACTAAAAGGTGAGAAA

>g1632.t3 Gene=g1632 Length=241
MTETTTETSKPRSADYKREASWPSVLFFIHLNILGLYGIVILFTHTKLITILFSFILTIM
GMYGTTVGAHRLWTHQTFKANTSLRFILMLCQTMAGQGSIYDFVRTHRLHHQTFKTADDP
FYSDKDFLSAQVFAHIRKLSTRQEKLLETVNMKDIEEDGIVMFQKRFYWILYLILFVLLP
INAPLEYWDDTVQAAIFVAFSLRYLIVINFAWLVNSAHFIWALDKNHKQSDSNMVFIVTK
R

Protein features from InterProScan

Transcript Database ID Name Start End E.value
1 g1632.t3 PANTHER PTHR11351 ACYL-COA DESATURASE 4 240 2.1E-115
2 g1632.t3 PANTHER PTHR11351:SF26 AGAP003050-PA 4 240 2.1E-115
4 g1632.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 22 42 1.0E-25
5 g1632.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 47 69 1.0E-25
7 g1632.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 70 90 1.0E-25
6 g1632.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 107 136 1.0E-25
3 g1632.t3 PRINTS PR00075 Fatty acid desaturase family 1 signature 201 222 1.0E-25
15 g1632.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 19 -
21 g1632.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 43 -
12 g1632.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 44 47 -
20 g1632.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 48 66 -
17 g1632.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 67 85 -
19 g1632.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 104 -
13 g1632.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 105 166 -
22 g1632.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 167 185 -
16 g1632.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 186 190 -
18 g1632.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 191 214 -
14 g1632.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 215 241 -
11 g1632.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
8 g1632.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 48 70 -
10 g1632.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 168 185 -
9 g1632.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 200 222 -

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

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