General information for g16336.t3
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 g16336 is located on chr_4: 9125644..9125971 (+ 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 | g16336 | g16336.t3 | TSS | g16336.t3 | 9123182 | 9123182 |
| chr_4 | g16336 | g16336.t3 | isoform | g16336.t3 | 9123239 | 9125971 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon1 | 9123239 | 9123314 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon2 | 9123394 | 9123567 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon3 | 9123671 | 9123726 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon4 | 9123780 | 9123902 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon5 | 9124024 | 9124121 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon6 | 9124191 | 9124362 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon7 | 9124566 | 9125140 |
| chr_4 | g16336 | g16336.t3 | cds | g16336.t3.CDS1 | 9124627 | 9125140 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon8 | 9125199 | 9125650 |
| chr_4 | g16336 | g16336.t3 | cds | g16336.t3.CDS2 | 9125199 | 9125650 |
| chr_4 | g16336 | g16336.t3 | exon | g16336.t3.exon9 | 9125711 | 9125971 |
| chr_4 | g16336 | g16336.t3 | cds | g16336.t3.CDS3 | 9125711 | 9125971 |
| chr_4 | g16336 | g16336.t3 | TTS | g16336.t3 | 9126057 | 9126057 |
Sequences
>g16336.t3 Gene=g16336 Length=1987
ATGAATAAAGATTTAGAAATTGAAAGAAGTAAAGTACCATTTAAAATTGAAGAATTGACA
AATTGGTTTTATGGAGATTAATTAATGTTTTTTAAGAAAATATTTTCTACTCTGACCCTG
ATTTGAAAAGTGACACAAGTTACATGAGTCATGTTGAAAAATATGAAGAAGCAATTAGAA
AAGTCACTGTTATATTGAAAAAATTAAAACACCTTGTAAATCAAGGTCAATATAACGAAG
AAATTTATCCCAAAATTTTGGGAGCGCAATTCTTAAAACATTTAATAAAGGAAGGCAACC
CAACAAGTGTGCATTTTGACATGTTTATACCAGGCATTAAAAGTATGGGAACACAAGTAC
AACAAGATGAATGGTTACCTAAAGCATTAACCTTAAAAATCATTGGCACTTATGCTCAAA
CAGAATTAGGTCATGGTACATATGTTCGAGGATTAGAAACTACAGCAACCTTTGATGAAA
ATACAAAAGAATTTGTTCTTAACACACCAACTTTAACAGCATACAAATGGTGGCCGGGCA
ATTTAGGTCATACAGTCAACCATGCTCTTGTTATGGCCCAATTGTATACAAAAGGCAAAT
GTTATGGCATTCACGCATTCATTGTACCTTTGAGAGACTTAGAAACCCATAAACCTTTGC
CAGGAGTTCATATAGGTAACATTTTTATTAATTATTTGAATACAACACTGTCAATAATGG
CTTTTTAGGATTGAAAAATGTTCGAATTCCCAGAAAAAATATGTTGATGAAAAATAGTGA
AGTAACTGAAAGTGGGGAATTTGTAATTCATAAAAACCCACTTCTAACTTATGGGACGAT
GACAATGATTAGAGTTGGAATAATTCAAGAAGTCCAAGTATTTTTAGCGAAAGCTGTTAC
TATTGCAACTCGGTATTCATTGGTAAGACGTCAAAGTCCAATAAACCCAAATGATGAAAT
AGAACCGCAAATCATTGAACACACGACACAACAGTACAAACTTTTTGTGCCATTGGCAAA
AGTTTTTTCTTTAAAAATTACATCTGACTACCTATGGAATCAATATGAAGATACAATGAA
AAAAATTGACAAGGGTGATTTGACAACATTACCAGAATTACATGCACTTTCTTGTTGTTT
AAAAGCTATATGCACTAACGATGCTGCTGAAGGTACTGAAATTTGCCGATTATCTTGCGG
AGGTCATGGCTTTCTTAATTCATCTGCACTTCCTGATTGCTATAAAATGATAACACCGGC
TCAAACATATGAAGGTGAAAACACTGTTTTATATTTACAAACTGCTCGTTATTTGATGAA
GACTTATGGTGAAATTTTAAAAGGTTCTAAAGTAACATCTACTGTTGCATATTTGAAAAA
ATACGTTGATCTTAATAGCAATCAACGTGAGTCATTTGATAGTTCTTCACGAGGAATTCT
TCGTGCTTTGCAGTATGCAGCTGCAGGAAAAATTTCTCAAGCTTATAATAATTTACAACA
AAGAATGAAAAATAATAATTCAAAAGAACAAGCTTTTAATCAAAGTGGTTTAGATATGAT
AAAAATTGCTGAAATTCATGGACGTGTTTACATGCTGGAAGTAACACTTAATGAAATTGA
AAAATCAGCTAAAAATTCATCGCCAAACCTTGCTTTTGTATTTAGAGATATTCTTGAACT
ATTTTCACTTGATTTAGCAACAAAATATATGGGTGAAATGCTGCAGTTTGTCAACATAAC
ATCACAAGCAATTGAAATTATGCAAGGAAGATTAGAAGCTGTGTTACGTAGAATGAGACA
ATATGTGATTGGCATCGTTGATGCATTTGACTTTTCTGATCAAATTTTGGATTCAACTCT
TGGTGCTTACGATGGTAATGTTTACGAAAGATTGATTGAGGCAGCAAAAAAATCGCCATT
AAATCAAGAAGATGTTAATAAATCATTCCATCTATATCTTAAACCGTTCCTTAAATCAAA
TTTGTAA
>g16336.t3 Gene=g16336 Length=408
MLMKNSEVTESGEFVIHKNPLLTYGTMTMIRVGIIQEVQVFLAKAVTIATRYSLVRRQSP
INPNDEIEPQIIEHTTQQYKLFVPLAKVFSLKITSDYLWNQYEDTMKKIDKGDLTTLPEL
HALSCCLKAICTNDAAEGTEICRLSCGGHGFLNSSALPDCYKMITPAQTYEGENTVLYLQ
TARYLMKTYGEILKGSKVTSTVAYLKKYVDLNSNQRESFDSSSRGILRALQYAAAGKISQ
AYNNLQQRMKNNNSKEQAFNQSGLDMIKIAEIHGRVYMLEVTLNEIEKSAKNSSPNLAFV
FRDILELFSLDLATKYMGEMLQFVNITSQAIEIMQGRLEAVLRRMRQYVIGIVDAFDFSD
QILDSTLGAYDGNVYERLIEAAKKSPLNQEDVNKSFHLYLKPFLKSNL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g16336.t3 | Gene3D | G3DSA:1.20.140.10 | - | 22 | 196 | 0 |
| 6 | g16336.t3 | Gene3D | G3DSA:1.20.140.10 | - | 223 | 357 | 0 |
| 2 | g16336.t3 | PANTHER | PTHR10909:SF250 | ACYL-COENZYME A OXIDASE | 1 | 407 | 0 |
| 3 | g16336.t3 | PANTHER | PTHR10909 | ELECTRON TRANSPORT OXIDOREDUCTASE | 1 | 407 | 0 |
| 1 | g16336.t3 | Pfam | PF01756 | Acyl-CoA oxidase | 225 | 405 | 0 |
| 5 | g16336.t3 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 22 | 207 | 0 |
| 4 | g16336.t3 | SUPERFAMILY | SSF47203 | Acyl-CoA dehydrogenase C-terminal domain-like | 224 | 406 | 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
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.
