Gene loci information

Transcript annotation

  • This transcript has been annotated as Peroxisomal acyl-coenzyme A oxidase 3.

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 g15017 g15017.t5 TTS g15017.t5 3534309 3534309
chr_4 g15017 g15017.t5 isoform g15017.t5 3534396 3537099
chr_4 g15017 g15017.t5 exon g15017.t5.exon1 3534396 3534958
chr_4 g15017 g15017.t5 cds g15017.t5.CDS1 3534396 3534958
chr_4 g15017 g15017.t5 exon g15017.t5.exon2 3535019 3535768
chr_4 g15017 g15017.t5 cds g15017.t5.CDS2 3535019 3535768
chr_4 g15017 g15017.t5 exon g15017.t5.exon3 3535820 3536628
chr_4 g15017 g15017.t5 cds g15017.t5.CDS3 3535820 3536628
chr_4 g15017 g15017.t5 exon g15017.t5.exon4 3536864 3536919
chr_4 g15017 g15017.t5 cds g15017.t5.CDS4 3536864 3536889
chr_4 g15017 g15017.t5 exon g15017.t5.exon5 3537023 3537099
chr_4 g15017 g15017.t5 TSS g15017.t5 3537099 3537099

Sequences

>g15017.t5 Gene=g15017 Length=2255
AGTCTTTGTGAAGTCTTAAACTCATTCACATCGGTGCGTTTAAAACTAAAGAGAAAAATT
CAAAGTTGCTGTTTTAGTCGATTTGTAAACCAAAAACTATAAGAGCAATGAGTCAATCAA
CTCAGAATTTTAGTTCACAACAACCAAAAGGAATGAAAGATCTTAATGATCCTAGATTTG
CTCGTAAAGACATTTTTCCAGACCTACATCTTCTTGATGGACCTTTACAGCAATATCGCT
ACAAAGCAACATTCGATTGGCGTCAAATGAGACTTATCACTGACCCTTTACCAGTATGGG
AAGTTAAATACAAAGTATGGGATTTTATGCAGAAAAATCCTCTTTTTGGTCGATCACATG
AAACTTTACCACTTGATGAACAACGAAAAATTGCAACAAAGCGAGCGTTTTCAATTTTTA
ATGAGAAAATTTTCAGCATTGAGCAATATTTAGAAACTCCAGAACTTGGTCAAAAATTTA
GTACTGCAATTACTGCCTTTGATCCAAGCATAAGTGTTAAAATTGGAATTGGCTTTGGAA
TGTTCCCAAATGTCATCATGTCACTTGGTAATGAAAGAGTTCAAGATTTAGTTATGGAAA
ATCAAAGGATGGAAAATATTGGTTGTTTTGCATTAACTGAAATTTCTCATGGCAGCGATT
CACAAAGAATGAAAACAACAGCAACTTATGACCCATCAACAAAATCATTTGTGTTAAACA
CACCAAATTTTGAGGCTGCAAAATGTTGGGTTGGTAACTTAGGAAAGACTGCAACGCATG
CCATTGTTTATGCACAACTTTATACACCTGATGGAAAATGTCATGGACTTAATGCTTTTG
TTGTTCCATTAAGAGATAAAAAGACACATATGGCATTTCCTGGTGTAACTATTGGTGATT
TAGGAGAGAAAATTTCTTTAAATGGTGTCGATAATGGATTTGTTCTTTTTAGCAATTATA
AAATTCCCAAAGAATATCTTCTTTCAAAAACTGGTGATGTTGATGATGAAGGAAATTTCA
TAACACAATATAAAGACCCAAAAAAGCGCATGGGTCTATCATTTGCAGCTTTATCTGGTG
GTCGAGTTGGAATATGTGAACTTGCAACAACTTATGGAATAACAGCAATAATAATTGCAA
TTCGTTATTCAGCAAGTCGTAAACAATTTGGACCTGATAATAGCAATATTGAGTATCCAG
TGCTTGAATATCAAACACAACAATATCGACTTATTCCACATTTAGCAAGTATCTATGCAG
TGAGATTTTTCTCAAATTGGATTGGACGTGAATATGGAAAAATGACACTTAAAGGTTTCA
CTGGTGAAAAAGTTAGTGTTGAAAGTGGCATGGAAATGCATGCAATTTCATCAGCTGGTA
AGCCAGTTTCTGGCTGGATTGTTAGAGATTGCATACAAGACTGTAGAGAAGCATGTGGTG
GACATGGATACTTGAAATGTGCACGATTGGGTGATTTGAGAAATGACAACGATCCAAATT
TGACTTATGAAGGTGAAAATAACGTTTTAATTCAACAAGCTTCAAATTTCTTAATTGCTA
TACGAGCAAAAGGATGGAATTCTTTTGAAAATGCATCACCATTGGGAACTGTTGCATTTT
TAAAAGATGGTGAAGCAATTTTAAGATCAAAATGGAATTGGTCTAAAATTGAATGTGTGA
TGAAACCTGAAAATCAACTAACAATTATGAATTTCATAGTGGCTTATCTTCTTGAAAAAA
CTTTTAATCGTACAAAATCACTTCAATCACAGGGACAATCATCCTTTGATGTTCGAAATA
ATTCTCAAGTTTTCCATGCTAATTGTCTTGCAATTGCTTATGGACATCGACAAATTTATT
CAACATTCCTCAATGAAATTCAAAATTTACCAAATTCTTCATCAGAGCGAGAAATTTTGA
CAAAATTGCTGTCAATGTTTGGTGCTAATTTAATTTTAACGACTTATATGAATGTTCTTT
ATGAAGGTAGTTTTATCACAAACGTTCATGCAAATGAATTGCTTCAGACTGGAATTTTAC
AACTCTTACCAGTGATTAAAGATGAAGCGGTTGCTTTAGTTGATGCAATTGCACCACCAG
ATTTTATTGTTAATTCACCACTTGGTATGAGTGATGGTGAAGTTTATAAACATCTTGAAA
ATTTCATGTATCAAACACCAGACACATTCACAAGACCATCATGGTGGAAAGATGTTGTTT
ATAAGGAAAATTATTTGCCAACATCAAAACTTTAA

>g15017.t5 Gene=g15017 Length=715
MSQSTQNFSSQQPKGMKDLNDPRFARKDIFPDLHLLDGPLQQYRYKATFDWRQMRLITDP
LPVWEVKYKVWDFMQKNPLFGRSHETLPLDEQRKIATKRAFSIFNEKIFSIEQYLETPEL
GQKFSTAITAFDPSISVKIGIGFGMFPNVIMSLGNERVQDLVMENQRMENIGCFALTEIS
HGSDSQRMKTTATYDPSTKSFVLNTPNFEAAKCWVGNLGKTATHAIVYAQLYTPDGKCHG
LNAFVVPLRDKKTHMAFPGVTIGDLGEKISLNGVDNGFVLFSNYKIPKEYLLSKTGDVDD
EGNFITQYKDPKKRMGLSFAALSGGRVGICELATTYGITAIIIAIRYSASRKQFGPDNSN
IEYPVLEYQTQQYRLIPHLASIYAVRFFSNWIGREYGKMTLKGFTGEKVSVESGMEMHAI
SSAGKPVSGWIVRDCIQDCREACGGHGYLKCARLGDLRNDNDPNLTYEGENNVLIQQASN
FLIAIRAKGWNSFENASPLGTVAFLKDGEAILRSKWNWSKIECVMKPENQLTIMNFIVAY
LLEKTFNRTKSLQSQGQSSFDVRNNSQVFHANCLAIAYGHRQIYSTFLNEIQNLPNSSSE
REILTKLLSMFGANLILTTYMNVLYEGSFITNVHANELLQTGILQLLPVIKDEAVALVDA
IAPPDFIVNSPLGMSDGEVYKHLENFMYQTPDTFTRPSWWKDVVYKENYLPTSKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g15017.t5 Gene3D G3DSA:2.40.110.10 - 172 310 1.9E-51
12 g15017.t5 Gene3D G3DSA:1.20.140.10 - 317 489 5.3E-53
11 g15017.t5 Gene3D G3DSA:1.20.140.10 - 528 661 4.6E-12
8 g15017.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 16 -
9 g15017.t5 MobiDBLite mobidb-lite consensus disorder prediction 1 21 -
3 g15017.t5 PANTHER PTHR10909:SF315 PEROXISOMAL ACYL-COENZYME A OXIDASE 3 35 707 2.5E-261
4 g15017.t5 PANTHER PTHR10909 ELECTRON TRANSPORT OXIDOREDUCTASE 35 707 2.5E-261
13 g15017.t5 PIRSF PIRSF000168 Acyl-CoA_oxidase 37 714 6.2E-171
1 g15017.t5 Pfam PF02770 Acyl-CoA dehydrogenase, middle domain 173 283 2.1E-17
2 g15017.t5 Pfam PF01756 Acyl-CoA oxidase 527 704 5.0E-40
5 g15017.t5 SUPERFAMILY SSF56645 Acyl-CoA dehydrogenase NM domain-like 41 298 1.41E-44
6 g15017.t5 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 315 493 5.15E-47
7 g15017.t5 SUPERFAMILY SSF47203 Acyl-CoA dehydrogenase C-terminal domain-like 518 706 1.05E-38

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:0006631 fatty acid metabolic process BP
GO:0005777 peroxisome CC
GO:0055114 NA NA
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.

Raw TPM values