General information for g16337.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable peroxisomal acyl-coenzyme A oxidase 1.
Parent gene
- The parent gene g16337 is located on chr_4: 9127850..9129399 (+ strand)
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.t1 | TSS | g16337.t1 | 9126572 | 9126572 |
| chr_4 | g16337 | g16337.t1 | isoform | g16337.t1 | 9126671 | 9129399 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon1 | 9126671 | 9126800 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS1 | 9126671 | 9126800 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon2 | 9126865 | 9127024 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS2 | 9126865 | 9127024 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon3 | 9127082 | 9127143 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS3 | 9127082 | 9127143 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon4 | 9127205 | 9127425 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS4 | 9127205 | 9127425 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon5 | 9127495 | 9127664 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS5 | 9127495 | 9127664 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon6 | 9127724 | 9128259 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS6 | 9127724 | 9128259 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon7 | 9128534 | 9128572 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS7 | 9128534 | 9128572 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon8 | 9128636 | 9129081 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS8 | 9128636 | 9129081 |
| chr_4 | g16337 | g16337.t1 | exon | g16337.t1.exon9 | 9129139 | 9129399 |
| chr_4 | g16337 | g16337.t1 | cds | g16337.t1.CDS9 | 9129139 | 9129399 |
| chr_4 | g16337 | g16337.t1 | TTS | g16337.t1 | 9129481 | 9129481 |
Sequences
>g16337.t1 Gene=g16337 Length=2025
ATGCCTGCCATATCGAAAACTATTAACAAAGATTTAAAAGAAGAGCGAGATAAAGTAAAA
TTCAATATTGAAGAATTTACAAACTGGTTCTATGGTGGTTCAGAGAAAGTGTTAGAGAAA
AGAAAAATTGAAAATTACTTCTTATCTGATAAGTCTTTAAATTTGGAAACTGATACGAGT
TATCTTAGCTACAAAGAAAAGTATGAAGAAGCAATTAGAAGAAGTTGTATTGTTTACCCT
AAAATGTTAAAGCTTCATCAAGAGCTTGGTGGAACTGAAGAAGATTTTCGTAAAATCATG
GACAATTTGAGATATACAATGAGTGCAATTCAAAAAGAAGGAAATCCGTTTATGTTGCAT
TTTGGTATGTTTACGGTAACTATAATGAATTTGGCTAATGATGAGCAGCTGTCAGAATGG
CTTCCGAAATGCGTTAATTGTGAAATACTTGGAACTTATGCACAGACTGAACTAGGACAT
GGTACATTTATCAAAAAACTTGAGACAACTGCTACTTATGATCCAAAAACAAAAGAATTT
GTCCTTAACACACCAACTTTAACAGCATACAAATGGTGGCCAGGAAATTTAGGTCATACA
GTCAACCATGCAATAGTAATGGCACAACTATATACTAAGGGAGAGTGCTGTGGAATTCAA
CCATTCATCGTACAAATTAGAGACTTAGAAACCCATAAGCCAATGCCAGGAATCACAGTT
GGTGATATTGGAAATAAAGTTGGATTTCAGACTGTTAATAACGGCTTTTTGGCATTTAAT
AATGTTCGTATTCCATACAAAAACATGCTCATGAAAAGCTCAAAGTTATCAGAAGACGGA
ACTTTCATAAAACCGAAAAATGCCAAACAAAATTATGGTACAATGGTATTTGTACGTGTT
TATATGATAATGGATGTTGTTGTAAATATGTCACGTGCTGCAACAATTGCAACTCGCTAT
TCAATGGTCAGAAGACAAAGTCCAATAAACCCAAATGATGAAGTGGAACCAAAAATTATT
GAACACATGACACAACAATATAAAATTTTCCCAGCTATTGCTAAAGTTATTATCTATAAG
TGCATGGCAGATAATTTGAGAAATCTTTATCAACAGATAACATTAGAAGGAACAAAAGGC
AGTTTTGAACGTGCACCAGAATTACATGCACTTTCATGCTGTTTAAAAGCTGTTTGCACT
AACGATGCAGCGAAGACAACTGAGATTCTTAGGCTCGCATGCGGAGGACATGGTTTCCTT
AATTCTTCAGGTTTTGCAGATAATTATAAAAATGCAACGGCAGCCCAAACATATGAAGGT
GAAAATACAGTAATGTTGCTCCAAACTGCAAGGTTTCTAATTAAATCATTCACAAAAGCA
AAAAATGGTGAGAAATTAACTGAAGGAGTTTTTTATTTGAATGATTTTGTAAAGCGCAAT
GGCAAACGTGAACCTTTTGATGATTCAATTCGTGGAATTTTGAGAGCAATACAAGCAGCA
GCTGCTGGTAAAATTTCTTCTGCATGGAAACATATTGAAGAAAAGAAGAAATTTCTTACA
GTTGAAGAAGCGACTAATCAAACTGGAATTGAATTGATTAGATGCGCTGAGTTGCATTGT
TATGTATGCTTACTTCAAACAGGAATTGAAGAAATTGAACAAATTATTAAAAATGTATCA
CCAGCACTTAGAGAAGTTTTTAAAAATGTTCTTGAACTTTATGCCATCGATAATGTTCTT
AATATGATTGGAGATATATTGCAACATGTTGATATGACAAATGCTGATATTGATAAACTA
CAAAAGCGTTTAGAAGCTGTTCTTACATTTTTTAGATCATCAGCAATTGGTATTGTAGAC
GGTTTTGATTTATCTGATGCTGTTGTTTCATCGACTCTTGGCACATATGATGGAAATGTA
TATGAAAATATATTTGAGGCAGCAATGAAATCACCATTGAATCAAGAAGACGTCAACAAA
TCATTCCATCTATATCTCAAACCGTTCCTTAAATCAAATTTGTAA
>g16337.t1 Gene=g16337 Length=674
MPAISKTINKDLKEERDKVKFNIEEFTNWFYGGSEKVLEKRKIENYFLSDKSLNLETDTS
YLSYKEKYEEAIRRSCIVYPKMLKLHQELGGTEEDFRKIMDNLRYTMSAIQKEGNPFMLH
FGMFTVTIMNLANDEQLSEWLPKCVNCEILGTYAQTELGHGTFIKKLETTATYDPKTKEF
VLNTPTLTAYKWWPGNLGHTVNHAIVMAQLYTKGECCGIQPFIVQIRDLETHKPMPGITV
GDIGNKVGFQTVNNGFLAFNNVRIPYKNMLMKSSKLSEDGTFIKPKNAKQNYGTMVFVRV
YMIMDVVVNMSRAATIATRYSMVRRQSPINPNDEVEPKIIEHMTQQYKIFPAIAKVIIYK
CMADNLRNLYQQITLEGTKGSFERAPELHALSCCLKAVCTNDAAKTTEILRLACGGHGFL
NSSGFADNYKNATAAQTYEGENTVMLLQTARFLIKSFTKAKNGEKLTEGVFYLNDFVKRN
GKREPFDDSIRGILRAIQAAAAGKISSAWKHIEEKKKFLTVEEATNQTGIELIRCAELHC
YVCLLQTGIEEIEQIIKNVSPALREVFKNVLELYAIDNVLNMIGDILQHVDMTNADIDKL
QKRLEAVLTFFRSSAIGIVDGFDLSDAVVSSTLGTYDGNVYENIFEAAMKSPLNQEDVNK
SFHLYLKPFLKSNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g16337.t1 | Gene3D | G3DSA:1.10.540.10 | - | 22 | 150 | 0 |
| 10 | g16337.t1 | Gene3D | G3DSA:2.40.110.10 | - | 151 | 289 | 0 |
| 11 | g16337.t1 | Gene3D | G3DSA:1.20.140.10 | - | 290 | 464 | 0 |
| 12 | g16337.t1 | Gene3D | G3DSA:1.20.140.10 | - | 489 | 623 | 0 |
| 4 | g16337.t1 | PANTHER | PTHR10909:SF250 | ACYL-COENZYME A OXIDASE | 9 | 673 | 0 |
| 5 | g16337.t1 | PANTHER | PTHR10909 | ELECTRON TRANSPORT OXIDOREDUCTASE | 9 | 673 | 0 |
| 13 | g16337.t1 | PIRSF | PIRSF000168 | Acyl-CoA_oxidase | 1 | 674 | 0 |
| 1 | g16337.t1 | Pfam | PF14749 | Acyl-coenzyme A oxidase N-terminal | 22 | 150 | 0 |
| 2 | g16337.t1 | Pfam | PF02770 | Acyl-CoA dehydrogenase, middle domain | 153 | 262 | 0 |
| 3 | g16337.t1 | Pfam | PF01756 | Acyl-CoA oxidase | 492 | 671 | 0 |
| 6 | g16337.t1 | SUPERFAMILY | SSF56645 | Acyl-CoA dehydrogenase NM domain-like | 11 | 273 | 0 |
| 7 | g16337.t1 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 290 | 475 | 0 |
| 8 | g16337.t1 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 494 | 672 | 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
- This transcript has been annotated with K00232 (acyl-CoA oxidase)
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.
