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_3 g3031 g3031.t14 isoform g3031.t14 22214088 22218754
chr_3 g3031 g3031.t14 exon g3031.t14.exon1 22214088 22214235
chr_3 g3031 g3031.t14 TSS g3031.t14 22214096 22214096
chr_3 g3031 g3031.t14 exon g3031.t14.exon2 22216840 22217139
chr_3 g3031 g3031.t14 cds g3031.t14.CDS1 22216905 22217139
chr_3 g3031 g3031.t14 exon g3031.t14.exon3 22217199 22217379
chr_3 g3031 g3031.t14 cds g3031.t14.CDS2 22217199 22217379
chr_3 g3031 g3031.t14 exon g3031.t14.exon4 22217443 22217784
chr_3 g3031 g3031.t14 cds g3031.t14.CDS3 22217443 22217784
chr_3 g3031 g3031.t14 exon g3031.t14.exon5 22217870 22217925
chr_3 g3031 g3031.t14 cds g3031.t14.CDS4 22217870 22217903
chr_3 g3031 g3031.t14 exon g3031.t14.exon6 22217988 22218754
chr_3 g3031 g3031.t14 TTS g3031.t14 22218909 22218909

Sequences

>g3031.t14 Gene=g3031 Length=1794
GCAAGTTTTGTCATTAATTTCTTGATTCTTCAGAGAAGAAGTAATAAATTGTGAATAGAA
ATTTTTTAAAGCATGAAAGTGTATTAAATATACTGTGAAATTAACAAATTACAATTTATA
CACACCAAGATTTGGCAATTATTCTTGGATACACTTTTTTTGCGCAGGCAACTTTATAGT
TTATTAAAGTTTGATATTCACGATTAACAAAAAATGGCTCCGCGTGAAGTCGTTAAAACT
TCAGAGATTTCCGTTAGTGGTGTATTGGATGAAAATGACATCGAAACAATTGATGGAGGA
TTGAAACAGCCATCACAAGGATATGCTAGACGCCGCAATTTAAAACTTGTTTGGCGCAAT
ATTATTCTTTTTGCGTATCTTCATCTTGCTGCAGTATATGGTTTATGGCTTATGTTAACT
TCTGCAAAATGGACTACAGGAATTTTCGCAATGATGTTGTATTCTATGAGCGGTCTTGGA
ATCACAGCTGGTGCTCATCGTCTATGGGCTCATCGTGCATACAAAGCTAAATGGCCATTA
CGCATTATTCTTACTATTTTCAATACAATTGCTTTCCAAGATTGCGCAATCCATTGGGCA
CGCGATCATCGAGTACATCATAAATACAGTGAAACTGACGCTGATCCACATAATGCAACA
CGCGGTTTCTTCTTCTCTCATATCGGCTGGCTCTTGTGTCGTAAACATCCTGATGTTATT
GCTGCCGGCAAGAAATTAGATATTTCCGATCTTGAGAATGATCCAATTTTACGATTCCAA
AGAAAATACTATTTGATTCTCATGCCATTGCTATGCTTCATCATCCCAACAATCATTCCT
GTCTTCTGGTGGGGCGAAACATGGAAAAATGCATGGTTTGTTGCAACAATGTTCCGTTAC
ACATTTATTCTCAATGTAACCTGGTTGGTTAACAGTGCAGCTCACAAATATGGTGATAAA
CCCTATGACAAAGAATATGTCAGTTGCTATCTTTGCTCTTGGTGAGGGATTCCACAATTA
CCACCATGTTTTCCCCTGGGATTACAAAACAGCTGAACTCGGCAACTACAGAATGAATTT
CACTACAGCATTTATTGATTTCTTTGCTAAGATTGGCTGGGCTTATGATTTGAAGACCGT
GTCAAATGAAATTATTCAAAAACGTGTTGAAAGAACGGGAGATGGCACTCATAAGTCATC
CAGAGATTCGACTTTATGGGGATATGGTGATCCAGCACAAAATGAAGAAGAAAAGAATAT
GATACCAATTTTACACAAAAAAGAAGACTAATTTATTAATTCTTAATTTCACTTTTCTTC
TAAAGAAACATACAAAAAAATCGTATTAAAAATATTTAATATTTAATATAATGGATGTGG
ATCTCCAGTGAATTAAACTATTTCTTTTCGCTGTATCAATTGAAAATTATCAATAGTTCT
GAAAGTAAAACTTTAAATACCTAAAGAAAGAAGTGGTTGAAGATTAACTTGATTCAGGTT
TTTGCACGCAGTTCACTGGAACAACAACACATAGAAAACTTTAATACAAATTATATATAT
CAACATATTTTTGGATAATGACTACTAAAAGTAATAATATTGCAGAACGAATAAGAAGAA
AAAGAGATCTTAATTCTTTTTTTCGCTCTCTCTCTCTCTCTATATATATATATAATGATG
ATTTGATATGGAAACATAACTGTCTTAAAAATAAGTTAGTGAGAGAGAAATTGGACATTT
TGTAATATGTAAAAGAAAGTAAATATAGAACAAGATTCCATTGGAATTAAGAAT

>g3031.t14 Gene=g3031 Length=263
MAPREVVKTSEISVSGVLDENDIETIDGGLKQPSQGYARRRNLKLVWRNIILFAYLHLAA
VYGLWLMLTSAKWTTGIFAMMLYSMSGLGITAGAHRLWAHRAYKAKWPLRIILTIFNTIA
FQDCAIHWARDHRVHHKYSETDADPHNATRGFFFSHIGWLLCRKHPDVIAAGKKLDISDL
ENDPILRFQRKYYLILMPLLCFIIPTIIPVFWWGETWKNAWFVATMFRYTFILNVTWLVN
SAAHKYGDKPYDKEYVSCYLCSW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
23 g3031.t14 CDD cd03505 Delta9-FADS-like 72 253 2.0724E-46
2 g3031.t14 PANTHER PTHR11351 ACYL-COA DESATURASE 13 254 2.2E-133
3 g3031.t14 PANTHER PTHR11351:SF91 DESATURASE 1, ISOFORM A-RELATED 13 254 2.2E-133
6 g3031.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 47 67 3.1E-65
5 g3031.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 72 94 3.1E-65
9 g3031.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 95 115 3.1E-65
4 g3031.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 132 161 3.1E-65
7 g3031.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 193 211 3.1E-65
8 g3031.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 226 247 3.1E-65
1 g3031.t14 Pfam PF00487 Fatty acid desaturase 72 252 1.5E-11
15 g3031.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 44 -
22 g3031.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 45 65 -
18 g3031.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 66 76 -
20 g3031.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 77 98 -
14 g3031.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 99 191 -
21 g3031.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 192 214 -
17 g3031.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 215 219 -
19 g3031.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 220 239 -
16 g3031.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 240 263 -
11 g3031.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 45 67 -
10 g3031.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 77 99 -
13 g3031.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 192 214 -
12 g3031.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 219 241 -

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