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.t8 TSS g16337.t8 9126572 9126572
chr_4 g16337 g16337.t8 isoform g16337.t8 9127205 9128572
chr_4 g16337 g16337.t8 exon g16337.t8.exon1 9127205 9127425
chr_4 g16337 g16337.t8 cds g16337.t8.CDS1 9127237 9127425
chr_4 g16337 g16337.t8 exon g16337.t8.exon2 9127495 9127664
chr_4 g16337 g16337.t8 cds g16337.t8.CDS2 9127495 9127664
chr_4 g16337 g16337.t8 exon g16337.t8.exon3 9127724 9128259
chr_4 g16337 g16337.t8 cds g16337.t8.CDS3 9127724 9128259
chr_4 g16337 g16337.t8 exon g16337.t8.exon4 9128534 9128572
chr_4 g16337 g16337.t8 cds g16337.t8.CDS4 9128534 9128571
chr_4 g16337 g16337.t8 TTS g16337.t8 9129481 9129481

Sequences

>g16337.t8 Gene=g16337 Length=966
TGTTGCATTTTGGTATGTTTACGGTAACTATAATGAATTTGGCTAATGATGAGCAGCTGT
CAGAATGGCTTCCGAAATGCGTTAATTGTGAAATACTTGGAACTTATGCACAGACTGAAC
TAGGACATGGTACATTTATCAAAAAACTTGAGACAACTGCTACTTATGATCCAAAAACAA
AAGAATTTGTCCTTAACACACCAACTTTAACAGCATACAAATGGTGGCCAGGAAATTTAG
GTCATACAGTCAACCATGCAATAGTAATGGCACAACTATATACTAAGGGAGAGTGCTGTG
GAATTCAACCATTCATCGTACAAATTAGAGACTTAGAAACCCATAAGCCAATGCCAGGAA
TCACAGTTGGTGATATTGGAAATAAAGTTGGATTTCAGACTGTTAATAACGGCTTTTTGG
CATTTAATAATGTTCGTATTCCATACAAAAACATGCTCATGAAAAGCTCAAAGTTATCAG
AAGACGGAACTTTCATAAAACCGAAAAATGCCAAACAAAATTATGGTACAATGGTATTTG
TACGTGTTTATATGATAATGGATGTTGTTGTAAATATGTCACGTGCTGCAACAATTGCAA
CTCGCTATTCAATGGTCAGAAGACAAAGTCCAATAAACCCAAATGATGAAGTGGAACCAA
AAATTATTGAACACATGACACAACAATATAAAATTTTCCCAGCTATTGCTAAAGTTATTA
TCTATAAGTGCATGGCAGATAATTTGAGAAATCTTTATCAACAGATAACATTAGAAGGAA
CAAAAGGCAGTTTTGAACGTGCACCAGAATTACATGCACTTTCATGCTGTTTAAAAGCTG
TTTGCACTAACGATGCAGCGAAGACAACTGAGATTCTTAGGCTCGCATGCGGAGGACATG
GTTTCCTTAATTCTTCAGGTTTTGCAGATAATTATAAAAATGCAACGGCAGCCCAAACAT
ATGAAG

>g16337.t8 Gene=g16337 Length=311
MNLANDEQLSEWLPKCVNCEILGTYAQTELGHGTFIKKLETTATYDPKTKEFVLNTPTLT
AYKWWPGNLGHTVNHAIVMAQLYTKGECCGIQPFIVQIRDLETHKPMPGITVGDIGNKVG
FQTVNNGFLAFNNVRIPYKNMLMKSSKLSEDGTFIKPKNAKQNYGTMVFVRVYMIMDVVV
NMSRAATIATRYSMVRRQSPINPNDEVEPKIIEHMTQQYKIFPAIAKVIIYKCMADNLRN
LYQQITLEGTKGSFERAPELHALSCCLKAVCTNDAAKTTEILRLACGGHGFLNSSGFADN
YKNATAAQTYE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g16337.t8 Gene3D G3DSA:2.40.110.10 - 23 161 0
7 g16337.t8 Gene3D G3DSA:1.20.140.10 - 162 311 0
2 g16337.t8 PANTHER PTHR10909:SF250 ACYL-COENZYME A OXIDASE 2 311 0
3 g16337.t8 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 2 311 0
1 g16337.t8 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 25 134 0
4 g16337.t8 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 2 145 0
5 g16337.t8 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 162 311 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: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.

Raw TPM values