Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA Delta(11) 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 g15057 g15057.t12 TTS g15057.t12 3734473 3734473
chr_4 g15057 g15057.t12 isoform g15057.t12 3734658 3738227
chr_4 g15057 g15057.t12 exon g15057.t12.exon1 3734658 3734722
chr_4 g15057 g15057.t12 cds g15057.t12.CDS1 3734658 3734722
chr_4 g15057 g15057.t12 exon g15057.t12.exon2 3734780 3735043
chr_4 g15057 g15057.t12 cds g15057.t12.CDS2 3734780 3735043
chr_4 g15057 g15057.t12 exon g15057.t12.exon3 3735209 3735781
chr_4 g15057 g15057.t12 cds g15057.t12.CDS3 3735209 3735781
chr_4 g15057 g15057.t12 exon g15057.t12.exon4 3735867 3736009
chr_4 g15057 g15057.t12 cds g15057.t12.CDS4 3735867 3735909
chr_4 g15057 g15057.t12 exon g15057.t12.exon5 3736067 3736189
chr_4 g15057 g15057.t12 exon g15057.t12.exon6 3738105 3738227
chr_4 g15057 g15057.t12 TSS g15057.t12 3738227 3738227

Sequences

>g15057.t12 Gene=g15057 Length=1291
AGTTTCGTTTGAGACTTTCGTGTGAAAAGACATAAAAATAATTGAAGTGAAAATTAAATT
TTTTTTTAGAAAAAGAAGAAAAAAGTTATAAAGTACTAAGAGTTTTCTTTTTGCATCTTT
AAGTTTTCGTTTCGTATGCAAAGAAGTTGAAAAACATAAAAAAAAGAATTTGCAAATCAT
CATATTCATCTGGTATTAAAATTAAGGAAAATGTCATCGTTTTCATCAAATGACACACTT
GGCTTGACAAAAAATGTGAACTCATTATTTCATATAAAACCTTTTAAAACGGAAATTGTT
TGGCGCAATGTTATCATCTTTACCATCATACATTATTTAGCACTCAATGCATTTACTATG
TGGGATTTTAGAGTTTTTGCATTTCGTAAATTACATCTACGGTTGGGTTGGAGCATTTGG
AATTTCTGCTGGTGCACATCGTTTATGGTGTCATCGAAGTTACAAAGCAAATAAGAAACT
TGAATTGCTTCTACTTTATCTAAACACAATAGCAGTTCAAAATTCAGTCATTGAATGGGT
TCGTGATCATCGAGTTCATCACAAACATAGCGATACTGATGCAGATCCTCATAATTCTAA
ACGTGGATTTTTCTTTTCTCATATGGGCTGGTTATTATGCAAAAAACATCCTGATGTGAA
GAAATTCGGTTCAAAAATTGATATGAGCGATTTAATGAATAATCCATTGCTGAGATTTCA
ACATAAATATTATATACCACTTATTTTGTTGATCAGTCAAATTATTCCAATTGCTTGCAC
AATTTATCTTTTTAACACGACAGTCTACACTTCATTTTGTTTTAGTATGAACAGATATTT
CATGTCATTACATCGAACATGGTTTACAAACTCGTTTGCTCATATTGGAACTTGGAAACC
ATATGACAAAAACATTGCATCAAGTGATTCGAAATTTTTTGGAACAATTTGCTTTGGTGA
AGGCTGGCATAATTTCCACCATGTCTTTCCATGGGATTACAAAGTTTCAGAACTTCCACT
CTATCGCTACAACTTCACAATCGCTTTTATTGACTTCTTTGTATGGCTTGGATGGGCAAC
AGACCTAAAAGTAGCATCTGACGATATGATCAGAAAAAGAGTTCTCAGAACTGGTGATGG
AAGTCATCCATATTCAATTGAAGCTGCTAAAAACAAAATTGAATTTGATATTGCGCAAAA
TGTGTCAAGTTTATGTTGGGGATTGGGCGACAATGATATGACTGAAGATGAAATGAATGG
AATAAAAACACTACACCCAAAAAGTCAATAA

>g15057.t12 Gene=g15057 Length=314
MHLLCGILEFLHFVNYIYGWVGAFGISAGAHRLWCHRSYKANKKLELLLLYLNTIAVQNS
VIEWVRDHRVHHKHSDTDADPHNSKRGFFFSHMGWLLCKKHPDVKKFGSKIDMSDLMNNP
LLRFQHKYYIPLILLISQIIPIACTIYLFNTTVYTSFCFSMNRYFMSLHRTWFTNSFAHI
GTWKPYDKNIASSDSKFFGTICFGEGWHNFHHVFPWDYKVSELPLYRYNFTIAFIDFFVW
LGWATDLKVASDDMIRKRVLRTGDGSHPYSIEAAKNKIEFDIAQNVSSLCWGLGDNDMTE
DEMNGIKTLHPKSQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g15057.t12 CDD cd03505 Delta9-FADS-like 17 248 1.46469E-59
2 g15057.t12 PANTHER PTHR11351 ACYL-COA DESATURASE 14 278 1.0E-101
3 g15057.t12 PANTHER PTHR11351:SF31 RE43130P 14 278 1.0E-101
7 g15057.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 8 30 2.5E-40
5 g15057.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 31 51 2.5E-40
9 g15057.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 68 97 2.5E-40
4 g15057.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 129 147 2.5E-40
6 g15057.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 161 182 2.5E-40
8 g15057.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 204 218 2.5E-40
1 g15057.t12 Pfam PF00487 Fatty acid desaturase 16 227 5.0E-14
15 g15057.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 15 -
17 g15057.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 16 35 -
12 g15057.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 36 127 -
18 g15057.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 128 149 -
14 g15057.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 150 224 -
16 g15057.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 225 244 -
13 g15057.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 245 314 -
11 g15057.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
10 g15057.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 132 154 -

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