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.t7 TSS g16337.t7 9126572 9126572
chr_4 g16337 g16337.t7 isoform g16337.t7 9126671 9129399
chr_4 g16337 g16337.t7 exon g16337.t7.exon1 9126671 9126800
chr_4 g16337 g16337.t7 exon g16337.t7.exon2 9126865 9127030
chr_4 g16337 g16337.t7 exon g16337.t7.exon3 9127082 9127143
chr_4 g16337 g16337.t7 cds g16337.t7.CDS1 9127089 9127143
chr_4 g16337 g16337.t7 exon g16337.t7.exon4 9127205 9127425
chr_4 g16337 g16337.t7 cds g16337.t7.CDS2 9127205 9127425
chr_4 g16337 g16337.t7 exon g16337.t7.exon5 9127495 9127664
chr_4 g16337 g16337.t7 cds g16337.t7.CDS3 9127495 9127664
chr_4 g16337 g16337.t7 exon g16337.t7.exon6 9127724 9128259
chr_4 g16337 g16337.t7 cds g16337.t7.CDS4 9127724 9128259
chr_4 g16337 g16337.t7 exon g16337.t7.exon7 9128534 9128572
chr_4 g16337 g16337.t7 cds g16337.t7.CDS5 9128534 9128572
chr_4 g16337 g16337.t7 exon g16337.t7.exon8 9128636 9129085
chr_4 g16337 g16337.t7 cds g16337.t7.CDS6 9128636 9129085
chr_4 g16337 g16337.t7 exon g16337.t7.exon9 9129139 9129399
chr_4 g16337 g16337.t7 cds g16337.t7.CDS7 9129139 9129146
chr_4 g16337 g16337.t7 TTS g16337.t7 9129481 9129481

Sequences

>g16337.t7 Gene=g16337 Length=2035
ATGCCTGCCATATCGAAAACTATTAACAAAGATTTAAAAGAAGAGCGAGATAAAGTAAAA
TTCAATATTGAAGAATTTACAAACTGGTTCTATGGTGGTTCAGAGAAAGTGTTAGAGAAA
AGAAAAATTGAAAATTACTTCTTATCTGATAAGTCTTTAAATTTGGAAACTGATACGAGT
TATCTTAGCTACAAAGAAAAGTATGAAGAAGCAATTAGAAGAAGTTGTATTGTTTACCCT
AAAATGTTAAAGCTTCATCAAGAGCTTGGTGGAACTGAAGAAGATTTTCGGTAAATTAAA
ATCATGGACAATTTGAGATATACAATGAGTGCAATTCAAAAAGAAGGAAATCCGTTTATG
TTGCATTTTGGTATGTTTACGGTAACTATAATGAATTTGGCTAATGATGAGCAGCTGTCA
GAATGGCTTCCGAAATGCGTTAATTGTGAAATACTTGGAACTTATGCACAGACTGAACTA
GGACATGGTACATTTATCAAAAAACTTGAGACAACTGCTACTTATGATCCAAAAACAAAA
GAATTTGTCCTTAACACACCAACTTTAACAGCATACAAATGGTGGCCAGGAAATTTAGGT
CATACAGTCAACCATGCAATAGTAATGGCACAACTATATACTAAGGGAGAGTGCTGTGGA
ATTCAACCATTCATCGTACAAATTAGAGACTTAGAAACCCATAAGCCAATGCCAGGAATC
ACAGTTGGTGATATTGGAAATAAAGTTGGATTTCAGACTGTTAATAACGGCTTTTTGGCA
TTTAATAATGTTCGTATTCCATACAAAAACATGCTCATGAAAAGCTCAAAGTTATCAGAA
GACGGAACTTTCATAAAACCGAAAAATGCCAAACAAAATTATGGTACAATGGTATTTGTA
CGTGTTTATATGATAATGGATGTTGTTGTAAATATGTCACGTGCTGCAACAATTGCAACT
CGCTATTCAATGGTCAGAAGACAAAGTCCAATAAACCCAAATGATGAAGTGGAACCAAAA
ATTATTGAACACATGACACAACAATATAAAATTTTCCCAGCTATTGCTAAAGTTATTATC
TATAAGTGCATGGCAGATAATTTGAGAAATCTTTATCAACAGATAACATTAGAAGGAACA
AAAGGCAGTTTTGAACGTGCACCAGAATTACATGCACTTTCATGCTGTTTAAAAGCTGTT
TGCACTAACGATGCAGCGAAGACAACTGAGATTCTTAGGCTCGCATGCGGAGGACATGGT
TTCCTTAATTCTTCAGGTTTTGCAGATAATTATAAAAATGCAACGGCAGCCCAAACATAT
GAAGGTGAAAATACAGTAATGTTGCTCCAAACTGCAAGGTTTCTAATTAAATCATTCACA
AAAGCAAAAAATGGTGAGAAATTAACTGAAGGAGTTTTTTATTTGAATGATTTTGTAAAG
CGCAATGGCAAACGTGAACCTTTTGATGATTCAATTCGTGGAATTTTGAGAGCAATACAA
GCAGCAGCTGCTGGTAAAATTTCTTCTGCATGGAAACATATTGAAGAAAAGAAGAAATTT
CTTACAGTTGAAGAAGCGACTAATCAAACTGGAATTGAATTGATTAGATGCGCTGAGTTG
CATTGTTATGTATGCTTACTTCAAACAGGAATTGAAGAAATTGAACAAATTATTAAAAAT
GTATCACCAGCACTTAGAGAAGTTTTTAAAAATGTTCTTGAACTTTATGCCATCGATAAT
GTTCTTAATATGATTGGAGATATATTGCAAGCAACATGTTGATATGACAAATGCTGATAT
TGATAAACTACAAAAGCGTTTAGAAGCTGTTCTTACATTTTTTAGATCATCAGCAATTGG
TATTGTAGACGGTTTTGATTTATCTGATGCTGTTGTTTCATCGACTCTTGGCACATATGA
TGGAAATGTATATGAAAATATATTTGAGGCAGCAATGAAATCACCATTGAATCAAGAAGA
CGTCAACAAATCATTCCATCTATATCTCAAACCGTTCCTTAAATCAAATTTGTAA

>g16337.t7 Gene=g16337 Length=492
MDNLRYTMSAIQKEGNPFMLHFGMFTVTIMNLANDEQLSEWLPKCVNCEILGTYAQTELG
HGTFIKKLETTATYDPKTKEFVLNTPTLTAYKWWPGNLGHTVNHAIVMAQLYTKGECCGI
QPFIVQIRDLETHKPMPGITVGDIGNKVGFQTVNNGFLAFNNVRIPYKNMLMKSSKLSED
GTFIKPKNAKQNYGTMVFVRVYMIMDVVVNMSRAATIATRYSMVRRQSPINPNDEVEPKI
IEHMTQQYKIFPAIAKVIIYKCMADNLRNLYQQITLEGTKGSFERAPELHALSCCLKAVC
TNDAAKTTEILRLACGGHGFLNSSGFADNYKNATAAQTYEGENTVMLLQTARFLIKSFTK
AKNGEKLTEGVFYLNDFVKRNGKREPFDDSIRGILRAIQAAAAGKISSAWKHIEEKKKFL
TVEEATNQTGIELIRCAELHCYVCLLQTGIEEIEQIIKNVSPALREVFKNVLELYAIDNV
LNMIGDILQATC

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g16337.t7 Gene3D G3DSA:1.10.540.10 - 1 51 0
10 g16337.t7 Gene3D G3DSA:2.40.110.10 - 52 190 0
12 g16337.t7 Gene3D G3DSA:1.20.140.10 - 191 365 0
11 g16337.t7 Gene3D G3DSA:1.20.140.10 - 391 492 0
4 g16337.t7 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 8 491 0
5 g16337.t7 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 8 491 0
1 g16337.t7 Pfam PF14749 Acyl-coenzyme A oxidase N-terminal 5 51 0
2 g16337.t7 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 54 163 0
3 g16337.t7 Pfam PF01756 Acyl-CoA oxidase 393 490 0
6 g16337.t7 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 17 174 0
7 g16337.t7 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 191 376 0
8 g16337.t7 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 395 489 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:0050660 flavin adenine dinucleotide binding 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