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.t6 TSS g16337.t6 9126572 9126572
chr_4 g16337 g16337.t6 isoform g16337.t6 9126671 9129399
chr_4 g16337 g16337.t6 exon g16337.t6.exon1 9126671 9126800
chr_4 g16337 g16337.t6 exon g16337.t6.exon2 9126865 9127051
chr_4 g16337 g16337.t6 exon g16337.t6.exon3 9127189 9127425
chr_4 g16337 g16337.t6 cds g16337.t6.CDS1 9127237 9127425
chr_4 g16337 g16337.t6 exon g16337.t6.exon4 9127495 9127664
chr_4 g16337 g16337.t6 cds g16337.t6.CDS2 9127495 9127664
chr_4 g16337 g16337.t6 exon g16337.t6.exon5 9127724 9128259
chr_4 g16337 g16337.t6 cds g16337.t6.CDS3 9127724 9128259
chr_4 g16337 g16337.t6 exon g16337.t6.exon6 9128534 9128572
chr_4 g16337 g16337.t6 cds g16337.t6.CDS4 9128534 9128572
chr_4 g16337 g16337.t6 exon g16337.t6.exon7 9128636 9129081
chr_4 g16337 g16337.t6 cds g16337.t6.CDS5 9128636 9129081
chr_4 g16337 g16337.t6 exon g16337.t6.exon8 9129139 9129399
chr_4 g16337 g16337.t6 cds g16337.t6.CDS6 9129139 9129399
chr_4 g16337 g16337.t6 TTS g16337.t6 9129481 9129481

Sequences

>g16337.t6 Gene=g16337 Length=2006
ATGCCTGCCATATCGAAAACTATTAACAAAGATTTAAAAGAAGAGCGAGATAAAGTAAAA
TTCAATATTGAAGAATTTACAAACTGGTTCTATGGTGGTTCAGAGAAAGTGTTAGAGAAA
AGAAAAATTGAAAATTACTTCTTATCTGATAAGTCTTTAAATTTGGAAACTGATACGAGT
TATCTTAGCTACAAAGAAAAGTATGAAGAAGCAATTAGAAGAAGTTGTATTGTTTACCCT
AAAATGTTAAAGCTTCATCAAGAGCTTGGTGGAACTGAAGAAGATTTTCGGTAAATGTAA
ATTTAAATGTGTAAAAAGAAAATCAATTTCTAGTGTTGCATTTTGGTATGTTTACGGTAA
CTATAATGAATTTGGCTAATGATGAGCAGCTGTCAGAATGGCTTCCGAAATGCGTTAATT
GTGAAATACTTGGAACTTATGCACAGACTGAACTAGGACATGGTACATTTATCAAAAAAC
TTGAGACAACTGCTACTTATGATCCAAAAACAAAAGAATTTGTCCTTAACACACCAACTT
TAACAGCATACAAATGGTGGCCAGGAAATTTAGGTCATACAGTCAACCATGCAATAGTAA
TGGCACAACTATATACTAAGGGAGAGTGCTGTGGAATTCAACCATTCATCGTACAAATTA
GAGACTTAGAAACCCATAAGCCAATGCCAGGAATCACAGTTGGTGATATTGGAAATAAAG
TTGGATTTCAGACTGTTAATAACGGCTTTTTGGCATTTAATAATGTTCGTATTCCATACA
AAAACATGCTCATGAAAAGCTCAAAGTTATCAGAAGACGGAACTTTCATAAAACCGAAAA
ATGCCAAACAAAATTATGGTACAATGGTATTTGTACGTGTTTATATGATAATGGATGTTG
TTGTAAATATGTCACGTGCTGCAACAATTGCAACTCGCTATTCAATGGTCAGAAGACAAA
GTCCAATAAACCCAAATGATGAAGTGGAACCAAAAATTATTGAACACATGACACAACAAT
ATAAAATTTTCCCAGCTATTGCTAAAGTTATTATCTATAAGTGCATGGCAGATAATTTGA
GAAATCTTTATCAACAGATAACATTAGAAGGAACAAAAGGCAGTTTTGAACGTGCACCAG
AATTACATGCACTTTCATGCTGTTTAAAAGCTGTTTGCACTAACGATGCAGCGAAGACAA
CTGAGATTCTTAGGCTCGCATGCGGAGGACATGGTTTCCTTAATTCTTCAGGTTTTGCAG
ATAATTATAAAAATGCAACGGCAGCCCAAACATATGAAGGTGAAAATACAGTAATGTTGC
TCCAAACTGCAAGGTTTCTAATTAAATCATTCACAAAAGCAAAAAATGGTGAGAAATTAA
CTGAAGGAGTTTTTTATTTGAATGATTTTGTAAAGCGCAATGGCAAACGTGAACCTTTTG
ATGATTCAATTCGTGGAATTTTGAGAGCAATACAAGCAGCAGCTGCTGGTAAAATTTCTT
CTGCATGGAAACATATTGAAGAAAAGAAGAAATTTCTTACAGTTGAAGAAGCGACTAATC
AAACTGGAATTGAATTGATTAGATGCGCTGAGTTGCATTGTTATGTATGCTTACTTCAAA
CAGGAATTGAAGAAATTGAACAAATTATTAAAAATGTATCACCAGCACTTAGAGAAGTTT
TTAAAAATGTTCTTGAACTTTATGCCATCGATAATGTTCTTAATATGATTGGAGATATAT
TGCAACATGTTGATATGACAAATGCTGATATTGATAAACTACAAAAGCGTTTAGAAGCTG
TTCTTACATTTTTTAGATCATCAGCAATTGGTATTGTAGACGGTTTTGATTTATCTGATG
CTGTTGTTTCATCGACTCTTGGCACATATGATGGAAATGTATATGAAAATATATTTGAGG
CAGCAATGAAATCACCATTGAATCAAGAAGACGTCAACAAATCATTCCATCTATATCTCA
AACCGTTCCTTAAATCAAATTTGTAA

>g16337.t6 Gene=g16337 Length=546
MNLANDEQLSEWLPKCVNCEILGTYAQTELGHGTFIKKLETTATYDPKTKEFVLNTPTLT
AYKWWPGNLGHTVNHAIVMAQLYTKGECCGIQPFIVQIRDLETHKPMPGITVGDIGNKVG
FQTVNNGFLAFNNVRIPYKNMLMKSSKLSEDGTFIKPKNAKQNYGTMVFVRVYMIMDVVV
NMSRAATIATRYSMVRRQSPINPNDEVEPKIIEHMTQQYKIFPAIAKVIIYKCMADNLRN
LYQQITLEGTKGSFERAPELHALSCCLKAVCTNDAAKTTEILRLACGGHGFLNSSGFADN
YKNATAAQTYEGENTVMLLQTARFLIKSFTKAKNGEKLTEGVFYLNDFVKRNGKREPFDD
SIRGILRAIQAAAAGKISSAWKHIEEKKKFLTVEEATNQTGIELIRCAELHCYVCLLQTG
IEEIEQIIKNVSPALREVFKNVLELYAIDNVLNMIGDILQHVDMTNADIDKLQKRLEAVL
TFFRSSAIGIVDGFDLSDAVVSSTLGTYDGNVYENIFEAAMKSPLNQEDVNKSFHLYLKP
FLKSNL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g16337.t6 Gene3D G3DSA:2.40.110.10 - 23 161 0
9 g16337.t6 Gene3D G3DSA:1.20.140.10 - 162 336 0
10 g16337.t6 Gene3D G3DSA:1.20.140.10 - 361 495 0
3 g16337.t6 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 2 545 0
4 g16337.t6 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 2 545 0
1 g16337.t6 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 25 134 0
2 g16337.t6 Pfam PF01756 Acyl-CoA oxidase 364 543 0
5 g16337.t6 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 2 145 0
6 g16337.t6 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 162 347 0
7 g16337.t6 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 366 544 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

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.

Raw TPM values