Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable peroxisomal acyl-coenzyme A oxidase 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_4 g16337 g16337.t4 TSS g16337.t4 9126572 9126572
chr_4 g16337 g16337.t4 isoform g16337.t4 9126671 9127850
chr_4 g16337 g16337.t4 exon g16337.t4.exon1 9126671 9126800
chr_4 g16337 g16337.t4 exon g16337.t4.exon2 9126865 9127002
chr_4 g16337 g16337.t4 exon g16337.t4.exon3 9127082 9127143
chr_4 g16337 g16337.t4 cds g16337.t4.CDS1 9127089 9127143
chr_4 g16337 g16337.t4 exon g16337.t4.exon4 9127205 9127425
chr_4 g16337 g16337.t4 cds g16337.t4.CDS2 9127205 9127425
chr_4 g16337 g16337.t4 exon g16337.t4.exon5 9127495 9127664
chr_4 g16337 g16337.t4 cds g16337.t4.CDS3 9127495 9127664
chr_4 g16337 g16337.t4 exon g16337.t4.exon6 9127724 9127850
chr_4 g16337 g16337.t4 cds g16337.t4.CDS4 9127724 9127850
chr_4 g16337 g16337.t4 TTS g16337.t4 NA NA

Sequences

>g16337.t4 Gene=g16337 Length=848
ATGCCTGCCATATCGAAAACTATTAACAAAGATTTAAAAGAAGAGCGAGATAAAGTAAAA
TTCAATATTGAAGAATTTACAAACTGGTTCTATGGTGGTTCAGAGAAAGTGTTAGAGAAA
AGAAAAATTGAAAATTACTTCTTATCTGATAAGTCTTTAAATTTGGAAACTGATACGAGT
TATCTTAGCTACAAAGAAAAGTATGAAGAAGCAATTAGAAGAAGTTGTATTGTTTACCCT
AAAATGTTAAAGCTTCATCAAGAGCTTGTAAAATCATGGACAATTTGAGATATACAATGA
GTGCAATTCAAAAAGAAGGAAATCCGTTTATGTTGCATTTTGGTATGTTTACGGTAACTA
TAATGAATTTGGCTAATGATGAGCAGCTGTCAGAATGGCTTCCGAAATGCGTTAATTGTG
AAATACTTGGAACTTATGCACAGACTGAACTAGGACATGGTACATTTATCAAAAAACTTG
AGACAACTGCTACTTATGATCCAAAAACAAAAGAATTTGTCCTTAACACACCAACTTTAA
CAGCATACAAATGGTGGCCAGGAAATTTAGGTCATACAGTCAACCATGCAATAGTAATGG
CACAACTATATACTAAGGGAGAGTGCTGTGGAATTCAACCATTCATCGTACAAATTAGAG
ACTTAGAAACCCATAAGCCAATGCCAGGAATCACAGTTGGTGATATTGGAAATAAAGTTG
GATTTCAGACTGTTAATAACGGCTTTTTGGCATTTAATAATGTTCGTATTCCATACAAAA
ACATGCTCATGAAAAGCTCAAAGTTATCAGAAGACGGAACTTTCATAAAACCGAAAAATG
CCAAACAA

>g16337.t4 Gene=g16337 Length=191
MDNLRYTMSAIQKEGNPFMLHFGMFTVTIMNLANDEQLSEWLPKCVNCEILGTYAQTELG
HGTFIKKLETTATYDPKTKEFVLNTPTLTAYKWWPGNLGHTVNHAIVMAQLYTKGECCGI
QPFIVQIRDLETHKPMPGITVGDIGNKVGFQTVNNGFLAFNNVRIPYKNMLMKSSKLSED
GTFIKPKNAKQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g16337.t4 Gene3D G3DSA:1.10.540.10 - 1 51 0
7 g16337.t4 Gene3D G3DSA:2.40.110.10 - 52 190 0
3 g16337.t4 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 8 190 0
4 g16337.t4 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 8 190 0
1 g16337.t4 Pfam PF14749 Acyl-coenzyme A oxidase N-terminal 5 51 0
2 g16337.t4 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 54 163 0
5 g16337.t4 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 13 174 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:0016627 oxidoreductase activity, acting on the CH-CH group of donors MF
GO:0050660 flavin adenine dinucleotide binding MF
GO:0055114 NA NA

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