Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Fatty acyl-CoA reductase 1.

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 g2345 g2345.t2 isoform g2345.t2 16941171 16941985
chr_3 g2345 g2345.t2 exon g2345.t2.exon1 16941171 16941333
chr_3 g2345 g2345.t2 cds g2345.t2.CDS1 16941180 16941333
chr_3 g2345 g2345.t2 exon g2345.t2.exon2 16941389 16941521
chr_3 g2345 g2345.t2 cds g2345.t2.CDS2 16941389 16941521
chr_3 g2345 g2345.t2 exon g2345.t2.exon3 16941576 16941833
chr_3 g2345 g2345.t2 cds g2345.t2.CDS3 16941576 16941833
chr_3 g2345 g2345.t2 exon g2345.t2.exon4 16941886 16941985
chr_3 g2345 g2345.t2 cds g2345.t2.CDS4 16941886 16941985
chr_3 g2345 g2345.t2 TSS g2345.t2 NA NA
chr_3 g2345 g2345.t2 TTS g2345.t2 NA NA

Sequences

>g2345.t2 Gene=g2345 Length=654
ACCGTCAACATGATTTTAGCTGCTTCATGGAAAGTTGGAACTGATATGAATTCAAGAAAT
TCATCACCTCAAGTTTATAATTGTTCGTCAAGTTCAATCAATCCAATTTATTTTAAAGAA
TTATATGAAGGATTTATTGAGAATGCTAGAAAATATCCATGCAGTGAAGTTTTATCGTAT
CCAAAAATTAAATTTTTTCGTTCACATTTACCTTCTGATTGTGCGGTTTTTGTATATCAA
AAAATTCCAGCTTTTTTATGTGATTTTGTCTTAACACTTGCTGGCAAAAAACCAAAATTT
GTAAAAATAATTGATTTTGTATACAGCAATTACAATTCTGCCAAATGGGCAACAACGAAT
AAAATCATTTTTCATAGCGAAAATCCAGTGAGGTTAATGAACTCGATGAGTCAAAAAGAT
TTGCAAGAATTCGATTTTGATGTTAGAAAAATATCCTGGTCAAAATTTATTGAAAATTCT
TACTTTGGAGTACGAAAGTTTATGGGCAAAGAAAAATCAGATAATTTTCCTGTTCTAAGA
AAGAAAATTCAAAGAATTAAATACGTTCAATACATTGCAACTGGCTCGTTGATTGTTGGA
TCAATGTTTCTTCTGAATAAAACTCAAATTTTTAGGTCAAATAAAGAAAGTTAA

>g2345.t2 Gene=g2345 Length=214
MILAASWKVGTDMNSRNSSPQVYNCSSSSINPIYFKELYEGFIENARKYPCSEVLSYPKI
KFFRSHLPSDCAVFVYQKIPAFLCDFVLTLAGKKPKFVKIIDFVYSNYNSAKWATTNKII
FHSENPVRLMNSMSQKDLQEFDFDVRKISWSKFIENSYFGVRKFMGKEKSDNFPVLRKKI
QRIKYVQYIATGSLIVGSMFLLNKTQIFRSNKES

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g2345.t2 CDD cd09071 FAR_C 75 165 1.32863E-20
2 g2345.t2 PANTHER PTHR11011:SF60 FATTY ACYL-COA REDUCTASE 2 1 202 5.1E-32
3 g2345.t2 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 1 202 5.1E-32
1 g2345.t2 Pfam PF03015 Male sterility protein 76 168 6.6E-23
6 g2345.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 184 -
7 g2345.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 185 202 -
5 g2345.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 203 214 -
4 g2345.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 185 202 -

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