Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Putative fatty acyl-CoA reductase CG5065.

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_2 g5966 g5966.t2 TTS g5966.t2 13091231 13091231
chr_2 g5966 g5966.t2 isoform g5966.t2 13091350 13092189
chr_2 g5966 g5966.t2 exon g5966.t2.exon1 13091350 13091497
chr_2 g5966 g5966.t2 cds g5966.t2.CDS1 13091350 13091497
chr_2 g5966 g5966.t2 exon g5966.t2.exon2 13091563 13091697
chr_2 g5966 g5966.t2 cds g5966.t2.CDS2 13091563 13091697
chr_2 g5966 g5966.t2 exon g5966.t2.exon3 13091754 13091885
chr_2 g5966 g5966.t2 cds g5966.t2.CDS3 13091754 13091885
chr_2 g5966 g5966.t2 exon g5966.t2.exon4 13091950 13092189
chr_2 g5966 g5966.t2 cds g5966.t2.CDS4 13091950 13092104
chr_2 g5966 g5966.t2 TSS g5966.t2 NA NA

Sequences

>g5966.t2 Gene=g5966 Length=655
CTCAATTGAAATCCCAGTATTTAATGTCACATGCCATCCTGAAAGTAAACAACCTTGGGG
TTTTATATTAGAAGAAGGTCGTAAAATGGTGCAAAAATATCCTTTCGAATTTGGCCTTTG
GGTACCGGGCGGTGGCATCACAACAAATAAATTTCTTCATCAACTTAACGTTGCACTCTT
TCACTGGGGTCCTGCTTACATCATCGACTTTCTTCTGCTCTGTTTCGGACAGAAACGTTT
CATGCTCCGTGTTCAGCAGAAAATCTCACAAGGGCTTGATGTACTCACTTTTTTTACAAT
GCGCGAATGGCAATTTGACTCGACACAATTCCAACGTGTTTTCAATGAATTGGACGTAGA
AGATAAGGAGATTTTTTACATGGACACCAGGATAATTAAAGACGAAATGCAGTTGGATTA
TTTAAAAGACACATTACTAGGAGGTCGTCAATATTGTATGAAAGAGCCTTTATCAACTTT
ACCAAAGGCAAGAATTCAGCTTAAAATAATGCTCATGGTCGATCGATTTATTAAGTTGCT
GTTGTTGTATTACATAATCAAGCTCTTTTTGGGATTGACCGGTCTTGATAGCATTGTTTC
TGCATTTATCGACGATCTCATGTTGAAAAGCTCATTTAATGCTTCGTTTAATTAA

>g5966.t2 Gene=g5966 Length=189
MVQKYPFEFGLWVPGGGITTNKFLHQLNVALFHWGPAYIIDFLLLCFGQKRFMLRVQQKI
SQGLDVLTFFTMREWQFDSTQFQRVFNELDVEDKEIFYMDTRIIKDEMQLDYLKDTLLGG
RQYCMKEPLSTLPKARIQLKIMLMVDRFIKLLLLYYIIKLFLGLTGLDSIVSAFIDDLML
KSSFNASFN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g5966.t2 CDD cd09071 FAR_C 31 125 4.38615E-29
2 g5966.t2 PANTHER PTHR11011 MALE STERILITY PROTEIN 2-RELATED 2 167 6.4E-58
3 g5966.t2 PANTHER PTHR11011:SF12 FATTY ACYL-COA REDUCTASE 2 167 6.4E-58
1 g5966.t2 Pfam PF03015 Male sterility protein 32 127 1.0E-25
7 g5966.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 30 -
9 g5966.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 31 48 -
6 g5966.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 49 151 -
10 g5966.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 175 -
8 g5966.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 176 189 -
5 g5966.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 29 48 -
4 g5966.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 152 174 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5966/g5966.t2; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5966.t2.fa.iupred3.txt does not exist

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