Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Delta(9)-fatty-acid desaturase fat-6.

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_4 g15057 g15057.t6 TTS g15057.t6 3734473 3734473
chr_4 g15057 g15057.t6 isoform g15057.t6 3734658 3736102
chr_4 g15057 g15057.t6 exon g15057.t6.exon1 3734658 3734722
chr_4 g15057 g15057.t6 exon g15057.t6.exon2 3734780 3735029
chr_4 g15057 g15057.t6 cds g15057.t6.CDS1 3734953 3735029
chr_4 g15057 g15057.t6 exon g15057.t6.exon3 3735215 3735781
chr_4 g15057 g15057.t6 cds g15057.t6.CDS2 3735215 3735781
chr_4 g15057 g15057.t6 exon g15057.t6.exon4 3735871 3736102
chr_4 g15057 g15057.t6 cds g15057.t6.CDS3 3735871 3735898
chr_4 g15057 g15057.t6 TSS g15057.t6 NA NA

Sequences

>g15057.t6 Gene=g15057 Length=1114
ATGTCATCGTTTTCATCAAATGACACACTTGGCTTGGTAAAAATTTATCAATAATTTATT
TAAATATTTTATTCTAATGAATTTCTTATTTAGACAAAAAATGTGAACTCATTATTTCAT
ATAAAACCTTTTAAAACGGAAATTGTTTGGCGCAATGTTATCATCTTTACCATCATACAT
TATTTAGCACTCAATGCATTTACTATGTGGGATTTTAGAGTTTTTGCATTTCATTACATC
TACGGTTGGGTTGGAGCATTTGGAATTTCTGCTGGTGCACATCGTTTATGGTGTCATCGA
AGTTACAAAGCAAATAAGAAACTTGAATTGCTTCTACTTTATCTAAACACAATAGCAGTT
CAAAATTCAGTCATTGAATGGGTTCGTGATCATCGAGTTCATCACAAACATAGCGATACT
GATGCAGATCCTCATAATTCTAAACGTGGATTTTTCTTTTCTCATATGGGCTGGTTATTA
TGCAAAAAACATCCTGATGTGAAGAAATTCGGTTCAAAAATTGATATGAGCGATTTAATG
AATAATCCATTGCTGAGATTTCAACATAAATATTATATACCACTTATTTTGTTGATCAGT
CAAATTATTCCAATTGCTTGCACAATTTATCTTTTTAACACGACAGTCTACACTTCATTT
TGTTTTAGTATGAACAGATATTTCATGTCATTACATCGAACATGGTTTACAAACTCGTTT
GCTCATATTGGAACTTGGAAACCATATGACAAAAACATTGCATCAAGTGATTCGAAATTT
TTTGGAACAATTTGCTTTGCACCATGTCTTTCCATGGGATTACAAAGTTTCAGAACTTCC
ACTCTATCGCTACAACTTCACAATCGCTTTTATTGACTTCTTTGTATGGCTTGGATGGGC
AACAGACCTAAAAGTAGCATCTGACGATATGATCAGAAAAAGAGTTCTCAGAACTGGTGA
TGGAAGTCATCCATATTCAATTGAAGCTGCTAAAAACAAAATTGAATTTGATATTGCGCA
AAATGTGTCAAGTTTATGTTGGGGATTGGGCGACAATGATATGACTGAAGATGAAATGAA
TGGAATAAAAACACTACACCCAAAAAGTCAATAA

>g15057.t6 Gene=g15057 Length=223
MWDFRVFAFHYIYGWVGAFGISAGAHRLWCHRSYKANKKLELLLLYLNTIAVQNSVIEWV
RDHRVHHKHSDTDADPHNSKRGFFFSHMGWLLCKKHPDVKKFGSKIDMSDLMNNPLLRFQ
HKYYIPLILLISQIIPIACTIYLFNTTVYTSFCFSMNRYFMSLHRTWFTNSFAHIGTWKP
YDKNIASSDSKFFGTICFAPCLSMGLQSFRTSTLSLQLHNRFY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g15057.t6 CDD cd03505 Delta9-FADS-like 6 198 1.08585E-36
2 g15057.t6 PANTHER PTHR11351 ACYL-COA DESATURASE 6 196 7.7E-72
3 g15057.t6 PANTHER PTHR11351:SF31 RE43130P 6 196 7.7E-72
8 g15057.t6 PRINTS PR00075 Fatty acid desaturase family 1 signature 3 25 5.6E-34
7 g15057.t6 PRINTS PR00075 Fatty acid desaturase family 1 signature 26 46 5.6E-34
4 g15057.t6 PRINTS PR00075 Fatty acid desaturase family 1 signature 63 92 5.6E-34
6 g15057.t6 PRINTS PR00075 Fatty acid desaturase family 1 signature 124 142 5.6E-34
5 g15057.t6 PRINTS PR00075 Fatty acid desaturase family 1 signature 156 177 5.6E-34
1 g15057.t6 Pfam PF00487 Fatty acid desaturase 8 182 1.1E-8
12 g15057.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 11 -
14 g15057.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
11 g15057.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 31 122 -
15 g15057.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 123 144 -
13 g15057.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 145 223 -
9 g15057.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -
10 g15057.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 123 145 -

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. There were no conditions that were differentially expressed