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.t3 TTS g15324.t3 4965353 4965353
chr_4 g15324 g15324.t3 isoform g15324.t3 4965444 4967676
chr_4 g15324 g15324.t3 exon g15324.t3.exon1 4965444 4965704
chr_4 g15324 g15324.t3 cds g15324.t3.CDS1 4965444 4965704
chr_4 g15324 g15324.t3 exon g15324.t3.exon2 4965761 4967169
chr_4 g15324 g15324.t3 cds g15324.t3.CDS2 4965761 4967169
chr_4 g15324 g15324.t3 exon g15324.t3.exon3 4967224 4967285
chr_4 g15324 g15324.t3 cds g15324.t3.CDS3 4967224 4967285
chr_4 g15324 g15324.t3 exon g15324.t3.exon4 4967343 4967502
chr_4 g15324 g15324.t3 cds g15324.t3.CDS4 4967343 4967502
chr_4 g15324 g15324.t3 exon g15324.t3.exon5 4967565 4967676
chr_4 g15324 g15324.t3 cds g15324.t3.CDS5 4967565 4967673
chr_4 g15324 g15324.t3 TSS g15324.t3 4967741 4967741

Sequences

>g15324.t3 Gene=g15324 Length=2004
GCAATGTCAAAAGAATTACAAGAAGAACGAAACAAAATTAAATTTAATGTTGAAGAATTT
ACAAATTGGTTTTATGGTGGACCTGAAAATGTCAAAAGAAAAAATTCTTTAGAAAATTAT
TTCTTATCGGATCCAAAGTTGAATTTAAATCTTGATACGAGTTATCTTAGTTATAAAGAA
CAATATGAAGAAGCAATAAGAAGAAGTTGTATTGTACATGACAAAATGAGAACTCTTTTA
CTGGACTGTTTTGATGATCAAGATGAATTGCTTCATGTACTTCTACATTTTCAAAGTGCT
ATAGGTCGAATTAATCCTGAAAGTGATCCACTAATTCTTCACTTTACAATGTTTGCATTT
ACAATGCTTAATTTGACGAATGATGAACAAAAAGCTGAATGGTTACCAAAAGTTTTAAAC
TGCAGCATAATTGGCACTTACGCACAAACAGAAATGGGCCATGGAACATATTTGAATCGT
CTTGAAACAACAGCAACTTATGATCCAAAAACTAAAGAATTTATTTTGAATTCACCAACT
TTAACTTCCTATAAATTCTGGCCAGGAAATTTAGGACATACTGCAAATCATGCTATTGTT
ATGGCTCAATTATATACTCAAGGTCAATGTTATGGAGTTCATCCTTTCATAGTTCAATTA
AGAGACCTGGAAACTCATAAATTATTAAATGGTGTAAAGACTGGTGACATTGGAAATAAA
GTTGGATTTCAAACAGTTAACAATGGCTATTTATGTCTAAGCAATGTCAGAATTCCACTT
AAAAATATGCTAATGAAAAGTTCTAAAGTTCTTGAAGATGGAACTTATGTAAAACCAAAA
AGTTCAAAACTTAATTATGGCACAATGATGTTTATAAGAGTAAAATTTGTTACTGCTATG
GCGACTTATCTTGCAAAAGCAGCGACAATTGCAACTCGCTATTCAATGGTAAGAAGACAA
AGTCCAATAAATCCGAATGATCTCGAACCGAAAATTATCGAACATAAAACACAGCAGTAT
AAAGTTTTTGTGCCATTAGCAAAAGCAATCATTTATAGAGTTGTTTCAAGTTATCTTTCT
AATTTACTATTTGATGTCACAAAAGAATCAAATGAAGGAAATTTGGAGCGTCTTCCTGAG
CTTCATGCATTGGCTTGTTGCATAAAAGCAGTCAGTACATATGAAGCTGATAAAGATGTT
GAAATGTGCAGACTTGCATGCGGTGGTCATGGTTATTTGAAATCTGCAGGATTTACTGGT
ATGCAAGGATATATTAAAGCAACTGTAACTGGTGAAGGTGAAAATACAGTGATGCATTTG
CAAACAGCTCGTTATTTAATGAAAACATTCACAAAAGCAAGAAATGGTGAGAAATTGACT
GAAGGTGTTGCTTATTTGAGTGAATTTATCAACTTAAATGGTCGACGTTTGATTTTTGAT
GATTCAATTCGAGGAATTTTGAGAGCAATTCAAACTACAGCTGCTGGTAAAATTGCAATG
GCTTGGAAACACATTGAAGAAAGAAAGAAAAATTTCACAGCAGAAGAAGCAGCAAGTTAT
ACTGGAATTGAATTGACAAGAGCATCAGAACTTCATTGTCACACTTGTTTGCTACAAATT
GCAATAGTTGAAATTGAAAAAGCAATCGGGAAAGTTTCACGAGCATTGGGAGAAATTTTG
AGAAATGTTTTGGAACTTTATGCTGTTGATACAATTTTGCGACTTTCTGGTGATGTTTTA
TTGTTTGTTAACATGACAGCTGAAGATGTTGAAAAACTTCAAAAACGTTTGGAAAATTCT
TTACAATTTTTCAGAAGCACTGCAATTGGCATCGTTGATGGATTTGATTTTTCTGATCAA
ATTTTGGATTCCACACTTGGTGCATATGATGGAAATGTTTATGAAAATTTATTTGCTGCT
ACCAAAAAGTCAACATTGAATGACGAAGAAGTCAACAAAAGTTTCCATTTGTATTTGAAG
CCATTTATGAAGGCAAATTTGTAA

>g15324.t3 Gene=g15324 Length=666
MSKELQEERNKIKFNVEEFTNWFYGGPENVKRKNSLENYFLSDPKLNLNLDTSYLSYKEQ
YEEAIRRSCIVHDKMRTLLLDCFDDQDELLHVLLHFQSAIGRINPESDPLILHFTMFAFT
MLNLTNDEQKAEWLPKVLNCSIIGTYAQTEMGHGTYLNRLETTATYDPKTKEFILNSPTL
TSYKFWPGNLGHTANHAIVMAQLYTQGQCYGVHPFIVQLRDLETHKLLNGVKTGDIGNKV
GFQTVNNGYLCLSNVRIPLKNMLMKSSKVLEDGTYVKPKSSKLNYGTMMFIRVKFVTAMA
TYLAKAATIATRYSMVRRQSPINPNDLEPKIIEHKTQQYKVFVPLAKAIIYRVVSSYLSN
LLFDVTKESNEGNLERLPELHALACCIKAVSTYEADKDVEMCRLACGGHGYLKSAGFTGM
QGYIKATVTGEGENTVMHLQTARYLMKTFTKARNGEKLTEGVAYLSEFINLNGRRLIFDD
SIRGILRAIQTTAAGKIAMAWKHIEERKKNFTAEEAASYTGIELTRASELHCHTCLLQIA
IVEIEKAIGKVSRALGEILRNVLELYAVDTILRLSGDVLLFVNMTAEDVEKLQKRLENSL
QFFRSTAIGIVDGFDFSDQILDSTLGAYDGNVYENLFAATKKSTLNDEEVNKSFHLYLKP
FMKANL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g15324.t3 Gene3D G3DSA:1.10.540.10 - 15 143 0
10 g15324.t3 Gene3D G3DSA:2.40.110.10 - 144 282 0
12 g15324.t3 Gene3D G3DSA:1.20.140.10 - 283 456 0
11 g15324.t3 Gene3D G3DSA:1.20.140.10 - 481 615 0
4 g15324.t3 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 2 665 0
5 g15324.t3 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 2 665 0
13 g15324.t3 PIRSF PIRSF000168 Acyl-CoA_oxidase 1 666 0
1 g15324.t3 Pfam PF14749 Acyl-coenzyme A oxidase N-terminal 15 143 0
2 g15324.t3 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 146 255 0
3 g15324.t3 Pfam PF01756 Acyl-CoA oxidase 484 663 0
6 g15324.t3 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 105 273 0
7 g15324.t3 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 282 466 0
8 g15324.t3 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 484 663 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:0005777 peroxisome CC
GO:0055114 NA NA
GO:0006635 fatty acid beta-oxidation BP
GO:0003997 acyl-CoA oxidase activity MF
GO:0006631 fatty acid metabolic process BP
GO:0071949 FAD binding MF

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

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