Gene loci information

Transcript annotation

  • This transcript has been annotated as Acyl-CoA 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 g115 g115.t12 TTS g115.t12 996357 996357
chr_3 g115 g115.t12 isoform g115.t12 996787 1001365
chr_3 g115 g115.t12 exon g115.t12.exon1 996787 997010
chr_3 g115 g115.t12 cds g115.t12.CDS1 996788 997010
chr_3 g115 g115.t12 exon g115.t12.exon2 997069 997197
chr_3 g115 g115.t12 cds g115.t12.CDS2 997069 997197
chr_3 g115 g115.t12 exon g115.t12.exon3 997284 997360
chr_3 g115 g115.t12 cds g115.t12.CDS3 997284 997360
chr_3 g115 g115.t12 exon g115.t12.exon4 998503 998633
chr_3 g115 g115.t12 cds g115.t12.CDS4 998503 998633
chr_3 g115 g115.t12 exon g115.t12.exon5 998702 998992
chr_3 g115 g115.t12 cds g115.t12.CDS5 998702 998969
chr_3 g115 g115.t12 exon g115.t12.exon6 1001143 1001365
chr_3 g115 g115.t12 TSS g115.t12 1001365 1001365

Sequences

>g115.t12 Gene=g115 Length=1075
GTTGCTGTCAAACCATTGAATCAAGTGAATGTGAAAAATATTTCATAGCTAAAAATCGGC
ATTTTAAATGTCAAATCAATTAATAATTTATCTTCATACAAGTGATCAGTTGTTTTTTAA
ATAATTATAGAAAAAAATAATTTTTTTGGGAAAATTTCATGAAATTGAGAAATGAAAAAT
TAAAGGAAAAAAAACAACTGTGGAAAAAGTTTGATTTTTTAAGAAAGAGCATACAAAATA
AAAAAAATGGCACCAGAAATAATGCAACCATCAAATCAGTCACAAAATGATAAAAATATT
ATACATCGTGTAAGCACAAATAAATTAGATGACAATCACAATTACAATCATGCAAATGGA
AATGGAAAAGTCGAAGCAGAAAATTCTCATGAAGTATTTAAGCCAAAAATACGATGGCCA
GATTTTATAGTGCAATTATCATTACATATTGGATTTTTGTATGGTCTCTATTACTTAATC
GCACTAAAAGCAAAATTCTACACATACATTTGGTTCTTTGTCCTCATTTATGTAACAGGT
TTAGGTATTACAGCCGGTGCGCATCGTCTATGGAGTCATCGTTCATACAAAGCAAAACTT
CCATTGCGTGTCCTTCTTTTGATATTTTTCACAATTGCTGGACAGAGAGACGCATATACA
TGGGCACACGATCATCGCATTCATCATAAATATTCTGAAACTGATTCTGATCCACATAAT
GCAAAACGTGGATTCTTTTTTGCTCATGTCGGCTGGTTATTTTTAACACCACATCCTGAT
GTCGTTGAAAAAAGAAAGTCAATTGATATGCGAGATTTGCAAGCAGATCCTTTACTTATG
TGGCAGAAAAAATATTATCCACCATTATTTGCTCTTCTAGTCATATTTTTTCCTACAATC
GTGCCTTATTATTTTTGGAATGAAGACTTGTGGATTTCTTTTTGGACAGCTTTTGTTTGT
CGTTTTGTAACTGTCTTAAATATTGCATTTTTTGTGAATAGCGTTGCACACATGTATGGA
ACAAAACCATATGATAAGAAAATTATGCCAGTAGAAAATTTAGCAGTTGCAATAA

>g115.t12 Gene=g115 Length=276
MAPEIMQPSNQSQNDKNIIHRVSTNKLDDNHNYNHANGNGKVEAENSHEVFKPKIRWPDF
IVQLSLHIGFLYGLYYLIALKAKFYTYIWFFVLIYVTGLGITAGAHRLWSHRSYKAKLPL
RVLLLIFFTIAGQRDAYTWAHDHRIHHKYSETDSDPHNAKRGFFFAHVGWLFLTPHPDVV
EKRKSIDMRDLQADPLLMWQKKYYPPLFALLVIFFPTIVPYYFWNEDLWISFWTAFVCRF
VTVLNIAFFVNSVAHMYGTKPYDKKIMPVENLAVAI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
22 g115.t12 CDD cd03505 Delta9-FADS-like 86 276 1.0533E-46
2 g115.t12 PANTHER PTHR11351 ACYL-COA DESATURASE 13 276 1.1E-131
3 g115.t12 PANTHER PTHR11351:SF61 RH14937P 13 276 1.1E-131
8 g115.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 57 77 2.1E-42
6 g115.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 106 126 2.1E-42
7 g115.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 143 172 2.1E-42
4 g115.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 204 222 2.1E-42
5 g115.t12 PRINTS PR00075 Fatty acid desaturase family 1 signature 237 258 2.1E-42
1 g115.t12 Pfam PF00487 Fatty acid desaturase 89 262 1.4E-12
14 g115.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 59 -
21 g115.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 78 -
17 g115.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 79 83 -
19 g115.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 105 -
15 g115.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 106 206 -
18 g115.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 207 224 -
16 g115.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 225 229 -
20 g115.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 230 250 -
13 g115.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 251 276 -
12 g115.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 60 79 -
11 g115.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 84 106 -
9 g115.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 207 224 -
10 g115.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 228 250 -

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