Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Stearoyl-CoA desaturase 5.

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.t11 TTS g115.t11 996357 996357
chr_3 g115 g115.t11 isoform g115.t11 996419 1001365
chr_3 g115 g115.t11 exon g115.t11.exon1 996419 996694
chr_3 g115 g115.t11 cds g115.t11.CDS1 996419 996694
chr_3 g115 g115.t11 exon g115.t11.exon2 996752 997010
chr_3 g115 g115.t11 cds g115.t11.CDS2 996752 997010
chr_3 g115 g115.t11 exon g115.t11.exon3 997069 997197
chr_3 g115 g115.t11 cds g115.t11.CDS3 997069 997112
chr_3 g115 g115.t11 exon g115.t11.exon4 998432 998633
chr_3 g115 g115.t11 exon g115.t11.exon5 998702 998992
chr_3 g115 g115.t11 exon g115.t11.exon6 1001143 1001365
chr_3 g115 g115.t11 TSS g115.t11 1001365 1001365

Sequences

>g115.t11 Gene=g115 Length=1380
GTTGCTGTCAAACCATTGAATCAAGTGAATGTGAAAAATATTTCATAGCTAAAAATCGGC
ATTTTAAATGTCAAATCAATTAATAATTTATCTTCATACAAGTGATCAGTTGTTTTTTAA
ATAATTATAGAAAAAAATAATTTTTTTGGGAAAATTTCATGAAATTGAGAAATGAAAAAT
TAAAGGAAAAAAAACAACTGTGGAAAAAGTTTGATTTTTTAAGAAAGAGCATACAAAATA
AAAAAAATGGCACCAGAAATAATGCAACCATCAAATCAGTCACAAAATGATAAAAATATT
ATACATCGTGTAAGCACAAATAAATTAGATGACAATCACAATTACAATCATGCAAATGGA
AATGGAAAAGTCGAAGCAGAAAATTCTCATGAAGTATTTAAGCCAAAAATACGATGGCCA
GATTTTATAGTGCAATTATCATTACATATTGGATTTTTGTATGGTCTCTATTACTTAATC
GCACTAAAAGCAAAATTCTACACATACATTTGGTTCTTTGTCCTCATTTATGTAACAGGT
TTAGGTATTACAGCCGGTGCGCATCGTCTATGGAGTCATCGTTCATACAAAGCAAAACTT
CCATTGCGTGTCCTTCTTTTGATATTTTTCACAATTGCTGGACAGGTAAGGAAAAATTCA
TTTTTCATTTTCTGAGTGATTTCGTGCATTTTTTCACATTTTATTGTCTGTTGCTTAAAA
CGTGGATTCTTTTTTGCTCATGTCGGCTGGTTATTTTTAACACCACATCCTGATGTCGTT
GAAAAAAGAAAGTCAATTGATATGCGAGATTTGCAAGCAGATCCTTTACTTATGTGGCAG
AAAAAATATTATCCACCATTATTTGCTCTTCTAGTCATATTTTTTCCTACAATCGTGCCT
TATTATTTTTGGAATGAAGACTTGTGGATTTCTTTTTGGACAGCTTTTGTTTGTCGTTTT
GTAACTGTCTTAAATATTGCATTTTTTGTGAATAGCGTTGCACACATGTATGGAACAAAA
CCATATGATAAGAAAATTATGCCAGTAGAAAATTTAGCAGTTGCAATAACAGCAATGGGT
GAAGGTTGGCACAATTATCATCATGTCTTTCCCTATGATTATAAAACTGGTGAATTTGGT
GGATGGCAAGGATATAAATTTAATATCACAACAGCTCACATTGACTTTTTTGCTAAAATT
GGCTGGGCTTATGATCGAAAATATGCAAGTGCTGAAATGATTGCAAGAAAAGTTGCAAAA
TCAGGCGATGGAAGTCATTTTTTATCACATGAAGAAGCACACAAAACTTCAATTTATGGT
TATGGTGATAAAGATCTTGAAATTGAAGATGCTAAAGCATTAGAAAATTTAAAAGAATGA

>g115.t11 Gene=g115 Length=192
MRDLQADPLLMWQKKYYPPLFALLVIFFPTIVPYYFWNEDLWISFWTAFVCRFVTVLNIA
FFVNSVAHMYGTKPYDKKIMPVENLAVAITAMGEGWHNYHHVFPYDYKTGEFGGWQGYKF
NITTAHIDFFAKIGWAYDRKYASAEMIARKVAKSGDGSHFLSHEEAHKTSIYGYGDKDLE
IEDAKALENLKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g115.t11 CDD cd03505 Delta9-FADS-like 38 140 2.08475E-34
1 g115.t11 PANTHER PTHR11351 ACYL-COA DESATURASE 1 190 3.3E-92
2 g115.t11 PANTHER PTHR11351:SF61 RH14937P 1 190 3.3E-92
3 g115.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 17 35 2.0E-18
5 g115.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 50 71 2.0E-18
4 g115.t11 PRINTS PR00075 Fatty acid desaturase family 1 signature 93 107 2.0E-18
9 g115.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 19 -
11 g115.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 37 -
10 g115.t11 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 38 42 -
12 g115.t11 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 63 -
8 g115.t11 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 64 192 -
6 g115.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 37 -
7 g115.t11 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 41 63 -

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