Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t14 TTS g115.t14 996357 996357
chr_3 g115 g115.t14 isoform g115.t14 997084 1001365
chr_3 g115 g115.t14 exon g115.t14.exon1 997084 997197
chr_3 g115 g115.t14 cds g115.t14.CDS1 997086 997197
chr_3 g115 g115.t14 exon g115.t14.exon2 997284 997360
chr_3 g115 g115.t14 cds g115.t14.CDS2 997284 997360
chr_3 g115 g115.t14 exon g115.t14.exon3 998503 998633
chr_3 g115 g115.t14 cds g115.t14.CDS3 998503 998633
chr_3 g115 g115.t14 exon g115.t14.exon4 998702 998992
chr_3 g115 g115.t14 cds g115.t14.CDS4 998702 998969
chr_3 g115 g115.t14 exon g115.t14.exon5 1001143 1001365
chr_3 g115 g115.t14 TSS g115.t14 1001365 1001365

Sequences

>g115.t14 Gene=g115 Length=836
GTTGCTGTCAAACCATTGAATCAAGTGAATGTGAAAAATATTTCATAGCTAAAAATCGGC
ATTTTAAATGTCAAATCAATTAATAATTTATCTTCATACAAGTGATCAGTTGTTTTTTAA
ATAATTATAGAAAAAAATAATTTTTTTGGGAAAATTTCATGAAATTGAGAAATGAAAAAT
TAAAGGAAAAAAAACAACTGTGGAAAAAGTTTGATTTTTTAAGAAAGAGCATACAAAATA
AAAAAAATGGCACCAGAAATAATGCAACCATCAAATCAGTCACAAAATGATAAAAATATT
ATACATCGTGTAAGCACAAATAAATTAGATGACAATCACAATTACAATCATGCAAATGGA
AATGGAAAAGTCGAAGCAGAAAATTCTCATGAAGTATTTAAGCCAAAAATACGATGGCCA
GATTTTATAGTGCAATTATCATTACATATTGGATTTTTGTATGGTCTCTATTACTTAATC
GCACTAAAAGCAAAATTCTACACATACATTTGGTTCTTTGTCCTCATTTATGTAACAGGT
TTAGGTATTACAGCCGGTGCGCATCGTCTATGGAGTCATCGTTCATACAAAGCAAAACTT
CCATTGCGTGTCCTTCTTTTGATATTTTTCACAATTGCTGGACAGAGAGACGCATATACA
TGGGCACACGATCATCGCATTCATCATAAATATTCTGAAACTGATTCTGATCCACATAAT
GCAAAACGTGGATTCTTTTTTGCTCATGTCGGCTGGTTATTTTTAACACCACATCCTGAT
GTCGTTGAAAAAAGAAAGTCAATTGATATGCGAGATTTGCAAGCAGATCCTTTACT

>g115.t14 Gene=g115 Length=196
MAPEIMQPSNQSQNDKNIIHRVSTNKLDDNHNYNHANGNGKVEAENSHEVFKPKIRWPDF
IVQLSLHIGFLYGLYYLIALKAKFYTYIWFFVLIYVTGLGITAGAHRLWSHRSYKAKLPL
RVLLLIFFTIAGQRDAYTWAHDHRIHHKYSETDSDPHNAKRGFFFAHVGWLFLTPHPDVV
EKRKSIDMRDLQADPL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g115.t14 CDD cd03505 Delta9-FADS-like 86 171 1.20261E-41
1 g115.t14 PANTHER PTHR11351 ACYL-COA DESATURASE 13 196 8.0E-86
2 g115.t14 PANTHER PTHR11351:SF61 RH14937P 13 196 8.0E-86
5 g115.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 57 77 1.9E-28
3 g115.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 106 126 1.9E-28
4 g115.t14 PRINTS PR00075 Fatty acid desaturase family 1 signature 143 172 1.9E-28
8 g115.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 59 -
12 g115.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 60 78 -
10 g115.t14 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 79 83 -
11 g115.t14 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 84 105 -
9 g115.t14 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 106 196 -
7 g115.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 61 80 -
6 g115.t14 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -

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.

Raw TPM values