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.t5 TTS g115.t5 996357 996357
chr_3 g115 g115.t5 isoform g115.t5 996419 998969
chr_3 g115 g115.t5 exon g115.t5.exon1 996419 996694
chr_3 g115 g115.t5 cds g115.t5.CDS1 996419 996694
chr_3 g115 g115.t5 exon g115.t5.exon2 996752 997010
chr_3 g115 g115.t5 cds g115.t5.CDS2 996752 997010
chr_3 g115 g115.t5 exon g115.t5.exon3 997069 997197
chr_3 g115 g115.t5 cds g115.t5.CDS3 997069 997112
chr_3 g115 g115.t5 exon g115.t5.exon4 997284 997360
chr_3 g115 g115.t5 exon g115.t5.exon5 998503 998969
chr_3 g115 g115.t5 TSS g115.t5 NA NA

Sequences

>g115.t5 Gene=g115 Length=1208
ATGGCACCAGAAATAATGCAACCATCAAATCAGTCACAAAATGATAAAAATATTATACAT
CGTGTAAGCACAAATAAATTAGATGACAATCACAATTACAATCATGCAAATGGAAATGGA
AAAGTCGAAGCAGAAAATTCTCATGAAGTATTTAAGCCAAAAATACGATGGCCAGATTTT
ATAGTGCAATTATCATTACATATTGGATTTTTGTATGGTCTCTATTACTTAATCGCACTA
AAAGCAAAATTCTACACATACATTTGGTGTGAGTTTCAAATGCAATCAATCGAAATTAAT
TAACTGAAATAAAATTGATTTTTTTCTTCTTTTTAGTCTTTGTCCTCATTTATGTAACAG
GTTTAGGTATTACAGCCGGTGCGCATCGTCTATGGAGTCATCGTTCATACAAAGCAAAAC
TTCCATTGCGTGTCCTTCTTTTGATATTTTTCACAATTGCTGGACAGAGAGACGCATATA
CATGGGCACACGATCATCGCATTCATCATAAATATTCTGAAACTGATTCTGATCCACATA
ATGCAAAACGTGGATTCTTTTTTGCTCATGTCGGCTGGTTATTTTTAACACCACATCCTG
ATGTCGTTGAAAAAAGAAAGTCAATTGATATGCGAGATTTGCAAGCAGATCCTTTACTTA
TGTGGCAGAAAAAATATTATCCACCATTATTTGCTCTTCTAGTCATATTTTTTCCTACAA
TCGTGCCTTATTATTTTTGGAATGAAGACTTGTGGATTTCTTTTTGGACAGCTTTTGTTT
GTCGTTTTGTAACTGTCTTAAATATTGCATTTTTTGTGAATAGCGTTGCACACATGTATG
GAACAAAACCATATGATAAGAAAATTATGCCAGTAGAAAATTTAGCAGTTGCAATAACAG
CAATGGGTGAAGGTTGGCACAATTATCATCATGTCTTTCCCTATGATTATAAAACTGGTG
AATTTGGTGGATGGCAAGGATATAAATTTAATATCACAACAGCTCACATTGACTTTTTTG
CTAAAATTGGCTGGGCTTATGATCGAAAATATGCAAGTGCTGAAATGATTGCAAGAAAAG
TTGCAAAATCAGGCGATGGAAGTCATTTTTTATCACATGAAGAAGCACACAAAACTTCAA
TTTATGGTTATGGTGATAAAGATCTTGAAATTGAAGATGCTAAAGCATTAGAAAATTTAA
AAGAATGA

>g115.t5 Gene=g115 Length=192
MRDLQADPLLMWQKKYYPPLFALLVIFFPTIVPYYFWNEDLWISFWTAFVCRFVTVLNIA
FFVNSVAHMYGTKPYDKKIMPVENLAVAITAMGEGWHNYHHVFPYDYKTGEFGGWQGYKF
NITTAHIDFFAKIGWAYDRKYASAEMIARKVAKSGDGSHFLSHEEAHKTSIYGYGDKDLE
IEDAKALENLKE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g115.t5 CDD cd03505 Delta9-FADS-like 38 140 2.08475E-34
1 g115.t5 PANTHER PTHR11351 ACYL-COA DESATURASE 1 190 3.3E-92
2 g115.t5 PANTHER PTHR11351:SF61 RH14937P 1 190 3.3E-92
3 g115.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 17 35 2.0E-18
5 g115.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 50 71 2.0E-18
4 g115.t5 PRINTS PR00075 Fatty acid desaturase family 1 signature 93 107 2.0E-18
9 g115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 19 -
11 g115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 37 -
10 g115.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 38 42 -
12 g115.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 43 63 -
8 g115.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 64 192 -
6 g115.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 37 -
7 g115.t5 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