Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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.t4 TTS g3715.t4 27605604 27605604
chr_3 g3715 g3715.t4 isoform g3715.t4 27605725 27606763
chr_3 g3715 g3715.t4 exon g3715.t4.exon1 27605725 27605979
chr_3 g3715 g3715.t4 cds g3715.t4.CDS1 27605725 27605979
chr_3 g3715 g3715.t4 exon g3715.t4.exon2 27606064 27606157
chr_3 g3715 g3715.t4 cds g3715.t4.CDS2 27606064 27606157
chr_3 g3715 g3715.t4 exon g3715.t4.exon3 27606320 27606689
chr_3 g3715 g3715.t4 cds g3715.t4.CDS3 27606320 27606612
chr_3 g3715 g3715.t4 exon g3715.t4.exon4 27606754 27606763
chr_3 g3715 g3715.t4 TSS g3715.t4 NA NA

Sequences

>g3715.t4 Gene=g3715 Length=729
ACTGGAATTGTTATTGGAGTTGCTGCCGGACTTTTGAGAGTTTTACACATAAACAAAGAG
AACAGAGCTGAGCTTGTACCCGTTGATATGTCTGTAAATTCGCTCATTGCCTGTGCTTAT
GATGTCGGTATAAATAATCATTATGATGAGCCACCAATCTACAATTATGTTACAAGCAAA
AAAAATTCTATTTCATGGCAAGATTATTGCGATTATAGCATTTTAAATGGAGTAACCGCA
CCATTATCGAAAATGGCTTGGTACTTTACATTTACAATGGTCTCATCTAAAAATCTTGCT
ATATTATTGACCTTCCTCTATCATACATTACCGGCTGCAATTATTGATGGTGTTCTTGTA
TTGTGTGGAAAAACTCCAAAATTACTCGACACTTACCGAAAAATTCACAAACTCTGCAAT
GTTTTATCTTATTTCACAAATCGTGTATGGAGCTTCAAAAACCACAATGTAGAAAACCTC
TGGCGTAAGCTTGACATCAAGGACAAAGAATTGTTCTTCTTTGACATGAATGATATCGAA
TGGCCAATGTTTTTTGTTGAAAGTATTTATGGCATTAGAACATATCTGATGAAGGAAGAT
CCAAAGACAATACCTGAGGCTTGCAAAAGGCTTAAAAAGATGAGAATTATTCACTATGTT
ACTGTTTATGTTATTAGATTTGGAGTTTTGTATTTTCTATATAAAATTCTTAAATCAATT
TTATTTTAA

>g3715.t4 Gene=g3715 Length=213
MSVNSLIACAYDVGINNHYDEPPIYNYVTSKKNSISWQDYCDYSILNGVTAPLSKMAWYF
TFTMVSSKNLAILLTFLYHTLPAAIIDGVLVLCGKTPKLLDTYRKIHKLCNVLSYFTNRV
WSFKNHNVENLWRKLDIKDKELFFFDMNDIEWPMFFVESIYGIRTYLMKEDPKTIPEACK
RLKKMRIIHYVTVYVIRFGVLYFLYKILKSILF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g3715.t4 CDD cd09071 FAR_C 77 168 7.68408E-35
2 g3715.t4 PANTHER PTHR11011:SF60 FATTY ACYL-COA REDUCTASE 2 2 206 9.9E-50
3 g3715.t4 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 2 206 9.9E-50
1 g3715.t4 Pfam PF03015 Male sterility protein 78 170 1.5E-30
9 g3715.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 69 -
11 g3715.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 70 94 -
7 g3715.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 95 186 -
10 g3715.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 187 205 -
8 g3715.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 206 213 -
6 g3715.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 43 62 -
5 g3715.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 72 94 -
4 g3715.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 187 205 -

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.

Raw TPM values