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 g15324 g15324.t4 isoform g15324.t4 4967676 4969680
chr_4 g15324 g15324.t4 exon g15324.t4.exon1 4967676 4968096
chr_4 g15324 g15324.t4 cds g15324.t4.CDS1 4967836 4968096
chr_4 g15324 g15324.t4 exon g15324.t4.exon2 4968272 4969119
chr_4 g15324 g15324.t4 cds g15324.t4.CDS2 4968272 4968964
chr_4 g15324 g15324.t4 exon g15324.t4.exon3 4969280 4969680
chr_4 g15324 g15324.t4 TSS g15324.t4 4970558 4970558
chr_4 g15324 g15324.t4 TTS g15324.t4 NA NA

Sequences

>g15324.t4 Gene=g15324 Length=1670
TGCTTCATTATGGAATGTTTCCATTTGCATTTCAAACTCTTGCAAACGAAGAGCAAAGGT
CAGAATGGATTCCAAAAATCGTTGACTGTAAGGTATTTGGCACTTACGCACAAACTGAGT
TAGGTCATGGAACTTTTGTTAGAGGCTTGGAAACAACAGCAACTTATGATCCAAAAACTA
AAGAATTCATCATAAACACACCAAGTTTGTCAGCTTATAAATTCTGGCCAGGAAATTTAG
GACATACAGCTAACCATACAGTTGTTTTTGCTCAATTATACATACAAGGTCAATGTCATG
GTGTACAACCATTCGTTATGAGAATTCGCGATCAAGAAACTCACAAGCCATTGCCAGGAA
TAAAAGTTGGTGATATTGGAAATAAACTTGGTTTTGATACTACGCTACATTGCATATTTC
TAAAGCAGCAACAATTGCTACTCGCTATTCAATGGTTAGAAGACAAAGTCCAATAAACCC
AAATGATCCCGAGCCAAAAATTATCGAACACGTTACACAACAATACAAAATATTTCCTGC
AATCGCTAAATCGATAATGTTTAAAATTGTTGCTGATTATTTAGCAGAAAAACGTGTACA
AGTCACTGAAGAATTAAAGCGAGGAAATTTAAAAAGTCTTCCAGAATTGCATGCACTTTC
GTGCTGTTTAAAAGCTGTTTGCACAAATGAAGCAGTTCAGACTATTGAAACTTGCCGTCT
GGCATGTGGTGGACATGGATTTATGAATGCTTCAGGTTTTTACAGTCTTTATAAATTTGC
TGTTACAATTCAACATTATGAAGGCGACAATACAATTTTACTTTTACAAACTGCTCGATA
TTTGATGAAATCTTTTGATAAAGCAACAAAGGCTGAAATTCTTGATGACGGTGTGAAATA
TTTAAAAATCTTCATCGAACTTAATGAAAAACGACAAAATTTTGAAAATTCTATTTTTGG
AATTTTACGAGCATTTCAAATTGCAGCTGCTGGAAAAATTTATTCAGCATGGAAAAATAT
TGAAGAAAAAAAGAAATTTATGACAGTTGAAGAAGCAACAAATCGAACTGGAATTGAATT
GATAAAAGCAGCAAAATTTCATTGTTATGTCAACATTCTTGAAATAACAATGAGATTTAT
TGAAAAATCAATTGAAAAAGTTTCGCCAGCACTTGGGCTTGTTTTAAAAAATATTTTTGA
ATTTTATGCAACTGATATGATGCTGAATAATATTGGGGAAATCCTTAAGTTTGTCAACAT
AACAAATGATGACATTGAAAAGCTTCAAATGCGAATTGAAGTTTTATTGAAATTCTTGCG
AACATCAGCAATTGGCATCGTTGATGGTTTTGACTTTTCAGATCAAAGTTTATCGTCAAC
AATTGGTGCATATGATGGAAATGTTTATGAAAATATATTTGCTGCTGCCAAGAAATCGCC
ACTTAATCAAGAAGATGTAAATAAATCATTCAACTTGTATATGAAACCATTTTTACAATC
GAAAATGTAAAATAATACAAACGAAATAAAAAAGTTTTCATTGTGGTTGTGGGAATTTTG
TAAATATATAAAATCAAAGTATGATAAGAATTTTTTATTGATTCAGTAAGTGAGAGGCAA
GTGTCGTGACAACAAGTGTATTACTAAATATTTTTTTACTAAAATGCAGG

>g15324.t4 Gene=g15324 Length=317
MFKIVADYLAEKRVQVTEELKRGNLKSLPELHALSCCLKAVCTNEAVQTIETCRLACGGH
GFMNASGFYSLYKFAVTIQHYEGDNTILLLQTARYLMKSFDKATKAEILDDGVKYLKIFI
ELNEKRQNFENSIFGILRAFQIAAAGKIYSAWKNIEEKKKFMTVEEATNRTGIELIKAAK
FHCYVNILEITMRFIEKSIEKVSPALGLVLKNIFEFYATDMMLNNIGEILKFVNITNDDI
EKLQMRIEVLLKFLRTSAIGIVDGFDFSDQSLSSTIGAYDGNVYENIFAAAKKSPLNQED
VNKSFNLYMKPFLQSKM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g15324.t4 Gene3D G3DSA:1.20.140.10 - 1 106 0
7 g15324.t4 Gene3D G3DSA:1.20.140.10 - 133 266 0
2 g15324.t4 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 2 316 0
3 g15324.t4 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 2 316 0
1 g15324.t4 Pfam PF01756 Acyl-CoA oxidase 136 314 0
5 g15324.t4 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 3 117 0
4 g15324.t4 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 132 314 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:0006635 fatty acid beta-oxidation BP
GO:0003997 acyl-CoA oxidase activity MF
GO:0005777 peroxisome CC
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