Gene loci information

Transcript annotation

  • This transcript has been annotated as Fatty acyl-CoA reductase wat.

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 g3715 g3715.t19 isoform g3715.t19 27606763 27612319
chr_3 g3715 g3715.t19 exon g3715.t19.exon1 27606763 27606929
chr_3 g3715 g3715.t19 cds g3715.t19.CDS1 27606764 27606929
chr_3 g3715 g3715.t19 exon g3715.t19.exon2 27606997 27607142
chr_3 g3715 g3715.t19 cds g3715.t19.CDS2 27606997 27607142
chr_3 g3715 g3715.t19 exon g3715.t19.exon3 27607757 27608005
chr_3 g3715 g3715.t19 cds g3715.t19.CDS3 27607757 27608005
chr_3 g3715 g3715.t19 exon g3715.t19.exon4 27608109 27608221
chr_3 g3715 g3715.t19 cds g3715.t19.CDS4 27608109 27608221
chr_3 g3715 g3715.t19 exon g3715.t19.exon5 27609449 27609527
chr_3 g3715 g3715.t19 cds g3715.t19.CDS5 27609449 27609527
chr_3 g3715 g3715.t19 exon g3715.t19.exon6 27609602 27609679
chr_3 g3715 g3715.t19 cds g3715.t19.CDS6 27609602 27609613
chr_3 g3715 g3715.t19 exon g3715.t19.exon7 27612210 27612319
chr_3 g3715 g3715.t19 TSS g3715.t19 27612316 27612316
chr_3 g3715 g3715.t19 TTS g3715.t19 NA NA

Sequences

>g3715.t19 Gene=g3715 Length=942
TTTAGTTAGATTTTGGTCGTTGTGTCAATCATACGTGCTGACGAGTTAAAAAATAAATAA
ATATAGCGCTTGAGTTGAATATAAAGAATTGCTTAAAGAAGAAAAAAAGAACTTAAATTT
ATAACATAAATAAATAAAGAAAATGGCTCCCTTGCAAGAAACAATCGAAGAATACAATGA
ATTGCAGCAGAGCTCACCGATCCAGCAATTCTACAAGAATAAAAACATCTTCATTACCGG
AGCGACAGGTTTTCTCGGAAAAGGTTATTTTAATTGAGAAACTCTTAAGAGCCTGTGACG
TTGAGAGGATTTTTATATTGATTCGAAGTAAGAAAAATGACGATATTAACACACGTATGG
AAAAAATATTTGAAGATCAATTATTTGATCAAGTGAGAAAAAACAATCCAACTTATCGAC
AAAAAATTTATCCAATCAATGGCGACTGCATTTTGCCTGGCTTGGGCATCAGTCTAAGTG
ACCGTGCACTGCTCATCAAACACTGCAATATTGTCTTTCATGGTGCAGCTACAGTTAGAT
TTGATGAGAAACTGAAACTTGCTCTTGCAATCAATGTTTGCGGTACAAGAGAAATTATGA
ATTTAGCTAAAGAAATGGAAAATCTTCAGGCATTTCTTCATATTTCAACTGCATATGCAA
ATTGTCCACATCCTGAAATTGAAGAAAAATTTTATTCAACACCAATCAGCGGAGAGAATG
GTACATATTTGGCTGAAATGTTAGATGAAGAAACATTAGAAAAAATGACACCAGCACTCT
TGAGAGACTGGCCCAATACATATACATATACAAAGTCATTGGCAGAAGATTATGTTAGAG
CACATTCTAAAAATTTACCAGTTGCTGTATTTCGTCCTGCAATTGTAATACCAACATTTA
GAGAACCACTTAGAGGTTGGATCGATAACATGTATGGCCCAA

>g3715.t19 Gene=g3715 Length=255
MNCSRAHRSSNSTRIKTSSLPERQVFSEKVILIEKLLRACDVERIFILIRSKKNDDINTR
MEKIFEDQLFDQVRKNNPTYRQKIYPINGDCILPGLGISLSDRALLIKHCNIVFHGAATV
RFDEKLKLALAINVCGTREIMNLAKEMENLQAFLHISTAYANCPHPEIEEKFYSTPISGE
NGTYLAEMLDEETLEKMTPALLRDWPNTYTYTKSLAEDYVRAHSKNLPVAVFRPAIVIPT
FREPLRGWIDNMYGP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g3715.t19 CDD cd05236 FAR-N_SDR_e 31 255 0
5 g3715.t19 Gene3D G3DSA:3.40.50.720 - 30 254 0
2 g3715.t19 PANTHER PTHR11011:SF60 FATTY ACYL-COA REDUCTASE 2 31 255 0
3 g3715.t19 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 31 255 0
1 g3715.t19 Pfam PF07993 Male sterility protein 31 253 0
4 g3715.t19 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 32 254 0

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:0080019 fatty-acyl-CoA reductase (alcohol-forming) activity 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. There were no conditions that were differentially expressed