Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA desaturase 1.

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 g1406 g1406.t10 TTS g1406.t10 10674847 10674847
chr_3 g1406 g1406.t10 isoform g1406.t10 10675030 10686910
chr_3 g1406 g1406.t10 exon g1406.t10.exon1 10675030 10675301
chr_3 g1406 g1406.t10 cds g1406.t10.CDS1 10675030 10675301
chr_3 g1406 g1406.t10 exon g1406.t10.exon2 10675362 10675469
chr_3 g1406 g1406.t10 cds g1406.t10.CDS2 10675362 10675469
chr_3 g1406 g1406.t10 exon g1406.t10.exon3 10675983 10676035
chr_3 g1406 g1406.t10 cds g1406.t10.CDS3 10675983 10676035
chr_3 g1406 g1406.t10 exon g1406.t10.exon4 10676103 10676489
chr_3 g1406 g1406.t10 cds g1406.t10.CDS4 10676103 10676489
chr_3 g1406 g1406.t10 exon g1406.t10.exon5 10676554 10676689
chr_3 g1406 g1406.t10 cds g1406.t10.CDS5 10676554 10676689
chr_3 g1406 g1406.t10 exon g1406.t10.exon6 10679170 10679353
chr_3 g1406 g1406.t10 cds g1406.t10.CDS6 10679170 10679353
chr_3 g1406 g1406.t10 exon g1406.t10.exon7 10679411 10679471
chr_3 g1406 g1406.t10 cds g1406.t10.CDS7 10679411 10679443
chr_3 g1406 g1406.t10 exon g1406.t10.exon8 10686680 10686910
chr_3 g1406 g1406.t10 TSS g1406.t10 10687224 10687224

Sequences

>g1406.t10 Gene=g1406 Length=1432
GACAACTGTTGAGACGAACACTTCAGCAGTTTGTGCCAAAAAAATTTTAAAGCAAAAAAT
ATTCTGAATTATTGAAAAATTTAAAGAAAGAATATTTTTGTTAGAGGAAAATTGTGTGAA
AAGTGAAATTAAAAGTGACTGAAAATAAATTGAAACTTGTGAAAAATTTAATTACTTTAA
AGAATATTCTAAGACTCTTCGTAATTTAATAAAATTTATAAATAAAAAAAGGATGGTGCA
CAAAGTTAGCAACTCGACAATGGCGATAGCTGAAGTCGATAAAAATGAAAATATGATCAA
GACAAAAAATTCGCTAAATGTTAGCGATGAAAAGCCACGAGACTTTCCTGCTGAATTACC
AGGACCAGAATATAAACTAGAATTAGTGTGGCGAAATATCATCATTTTTGCATTACTTCA
TATAGGCTATGTTGCTGCATTTTTCATCGATAAATTTACAATTACTAAAGTCTTTGGCGT
TGTATATGGAATTTGTGGTGGCTTCGGAATAACAGCAGGTGCTCATCGACTTTGGGCTCA
TAATTCATACAAAACAAATACAGCCTACAAAATTATGCTTCTTATTTTCCAAACAATCGC
ATTTCAGAACAGTGCATACGAATGGACAAGAGATCATCGTGTCCATCACAAATTTACTGA
TACAAATGCAGATCCACATAATGCACGTCGTGGTTTTTTCTTCTCACATATGGGCTGGTT
GTTGTGCAAAAAACATCCGGATGTTAAAAAGTTTGGTGCAAGAGTTAGCATGGCTGATTT
AGAAGCTGATCCAATCATTATGTTTCAACATAGACATTACCTTAAGCTCATGTTGTTCTT
CAGTCTTATTTTGCCAGTTTTTATTCCGTGGTATTTCTGGGGTGAAAGTTTTTGGGCTTC
ATTTTTAATTGCTGGCGTTTTACGTTACATTACTTCACTTCATATTACATGGCTTATTAA
TTCTGCTGCACATACTTATGGAATGAAACCTTTTGATAAGAATATTTCACCATCTGACAG
CTATCTTGTTGGATTTTTAGCTATGGGAGAAGGCTGGCATAATTATCATCACGTCTTTCC
TTATGATTACAAAACTTCAGAATTAGGATTTTACGTGTTCAACTTAACGACAGCTTTTAT
TGATTTTTTCTCACTGTTTGGATGGACATATGACCTTAAAACAGTGTCACCTGAAATGAT
CAGACGTCGTGTGTTGAGAACAGGTGATGGAAGTCATCCAGCATCAAAAGAAATGGATAC
AAAGGAATTATTGAATAAATTTATCCTAAGTCAAGCAATTGACAAAAATGGAAATATAAT
TCATAATGAAGAAGACTCAATATGGGGATTTAATGATGAAATGCTTCCAGCTGAAGATAG
AAAATACATTAAAATTATTAACAAACATTCAAATTTAAAGAAAAGAAATTAA

>g1406.t10 Gene=g1406 Length=390
MAIAEVDKNENMIKTKNSLNVSDEKPRDFPAELPGPEYKLELVWRNIIIFALLHIGYVAA
FFIDKFTITKVFGVVYGICGGFGITAGAHRLWAHNSYKTNTAYKIMLLIFQTIAFQNSAY
EWTRDHRVHHKFTDTNADPHNARRGFFFSHMGWLLCKKHPDVKKFGARVSMADLEADPII
MFQHRHYLKLMLFFSLILPVFIPWYFWGESFWASFLIAGVLRYITSLHITWLINSAAHTY
GMKPFDKNISPSDSYLVGFLAMGEGWHNYHHVFPYDYKTSELGFYVFNLTTAFIDFFSLF
GWTYDLKTVSPEMIRRRVLRTGDGSHPASKEMDTKELLNKFILSQAIDKNGNIIHNEEDS
IWGFNDEMLPAEDRKYIKIINKHSNLKKRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
30 g1406.t10 CDD cd03505 Delta9-FADS-like 71 307 3.22734E-73
2 g1406.t10 PANTHER PTHR11351 ACYL-COA DESATURASE 38 329 1.3E-124
3 g1406.t10 PANTHER PTHR11351:SF91 DESATURASE 1, ISOFORM A-RELATED 38 329 1.3E-124
6 g1406.t10 PRINTS PR00075 Fatty acid desaturase family 1 signature 44 64 4.1E-51
5 g1406.t10 PRINTS PR00075 Fatty acid desaturase family 1 signature 89 109 4.1E-51
8 g1406.t10 PRINTS PR00075 Fatty acid desaturase family 1 signature 126 155 4.1E-51
4 g1406.t10 PRINTS PR00075 Fatty acid desaturase family 1 signature 187 205 4.1E-51
9 g1406.t10 PRINTS PR00075 Fatty acid desaturase family 1 signature 220 241 4.1E-51
7 g1406.t10 PRINTS PR00075 Fatty acid desaturase family 1 signature 263 277 4.1E-51
1 g1406.t10 Pfam PF00487 Fatty acid desaturase 71 274 2.9E-16
22 g1406.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 41 -
24 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 42 63 -
17 g1406.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 64 69 -
27 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 89 -
20 g1406.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 90 100 -
29 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 120 -
18 g1406.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 121 186 -
28 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 206 -
19 g1406.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 207 211 -
26 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 212 233 -
15 g1406.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 234 253 -
25 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 254 270 -
21 g1406.t10 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 271 281 -
23 g1406.t10 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 282 306 -
16 g1406.t10 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 307 390 -
11 g1406.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 42 61 -
12 g1406.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 71 93 -
14 g1406.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 190 207 -
13 g1406.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 211 233 -
10 g1406.t10 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 282 304 -

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 transcript belongs to the following 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